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Entry version 180 (29 Sep 2021)
Sequence version 2 (27 Jul 2011)
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Protein

RNA-binding protein 39

Gene

Rbm39

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

RNA-binding protein that acts as a pre-mRNA splicing factor. Acts by promoting exon inclusion via regulation of exon cassette splicing (By similarity).

Also acts as a transcriptional coactivator for steroid nuclear receptors ESR1/ER-alpha and ESR2/ER-beta, and JUN/AP-1, independently of the pre-mRNA splicing factor activity (PubMed:11704680).

By similarity1 Publication

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionActivator, RNA-binding
Biological processmRNA processing, mRNA splicing, Transcription, Transcription regulation

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
RNA-binding protein 39
Alternative name(s):
Coactivator of activating protein 1 and estrogen receptors1 Publication
Short name:
Coactivator of AP-1 and ERs1 Publication
RNA-binding motif protein 39
RNA-binding region-containing protein 2
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:Rbm39
Synonyms:Caper1 Publication, Rnpc2
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiMus musculus (Mouse)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri10090 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000000589 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 2

Organism-specific databases

Mouse genome database (MGD) from Mouse Genome Informatics (MGI)

More...
MGIi
MGI:2157953, Rbm39

Eukaryotic Pathogen, Vector and Host Database Resources

More...
VEuPathDBi
HostDB:ENSMUSG00000027620

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Keywords - Cellular componenti

Nucleus

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/ptm_processing_section">PTM / Processing</a> section indicates that the initiator methionine is cleaved from the mature protein.<p><a href='/help/init_met' target='_top'>More...</a></p>Initiator methionineiRemovedBy similarity
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00000818152 – 530RNA-binding protein 39Add BLAST529

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei2N-acetylalanineBy similarity1
Modified residuei95PhosphotyrosineBy similarity1
Modified residuei97PhosphoserineBy similarity1
Modified residuei100PhosphoserineBy similarity1
<p>This subsection of the <a href="http://www.uniprot.org/help/ptm_processing_section">PTM / Processing</a> section describes <strong>covalent linkages</strong> of various types formed <strong>between two proteins (interchain cross-links)</strong> or <strong>between two parts of the same protein (intrachain cross-links)</strong>, except the disulfide bonds that are annotated in the <a href="http://www.uniprot.org/manual/disulfid">'Disulfide bond'</a> subsection.<p><a href='/help/crosslnk' target='_top'>More...</a></p>Cross-linki111Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residuei117PhosphoserineCombined sources1
Cross-linki119Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residuei121PhosphoserineBy similarity1
Modified residuei136PhosphoserineCombined sources1
Modified residuei146PhosphothreonineBy similarity1
Cross-linki244Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residuei334PhosphoserineCombined sources1
Modified residuei337PhosphoserineCombined sources1
Modified residuei341PhosphoserineBy similarity1

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

jPOST - Japan Proteome Standard Repository/Database

More...
jPOSTi
Q8VH51

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
Q8VH51

PeptideAtlas

More...
PeptideAtlasi
Q8VH51

PRoteomics IDEntifications database

More...
PRIDEi
Q8VH51

ProteomicsDB: a multi-organism proteome resource

More...
ProteomicsDBi
255129 [Q8VH51-1]
255130 [Q8VH51-2]
255131 [Q8VH51-3]

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
Q8VH51

Comprehensive resource for the study of protein post-translational modifications (PTMs) in human, mouse and rat.

More...
PhosphoSitePlusi
Q8VH51

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSMUSG00000027620, Expressed in undifferentiated genital tubercle and 318 other tissues

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
Q8VH51, baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q8VH51, MM

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Interacts with NCOA6 and JUN (PubMed:11704680).

Interacts with ESR1 and ESR2, in the presence of estradiol (E2) (PubMed:11704680).

Interacts with RSRC1 (via Arg/Ser-rich domain) (By similarity).

Interacts with SF3B1 (By similarity).

Interacts with ZNF106 (via N-terminus) (PubMed:27418600).

By similarity2 Publications

GO - Molecular functioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
228442, 36 interactors

Protein interaction database and analysis system

More...
IntActi
Q8VH51, 9 interactors

Molecular INTeraction database

More...
MINTi
Q8VH51

STRING: functional protein association networks

More...
STRINGi
10090.ENSMUSP00000105216

Miscellaneous databases

RNAct, Protein-RNA interaction predictions for model organisms.

More...
RNActi
Q8VH51, protein

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

1530
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

Biological Magnetic Resonance Data Bank

More...
BMRBi
Q8VH51

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
Q8VH51

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...
EvolutionaryTracei
Q8VH51

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini153 – 230RRM 1PROSITE-ProRule annotationAdd BLAST78
Domaini250 – 328RRM 2PROSITE-ProRule annotationAdd BLAST79
Domaini445 – 508RRM 3PROSITE-ProRule annotationAdd BLAST64

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni1 – 146DisorderedSequence analysisAdd BLAST146
Regioni291 – 406Interaction with JUN1 PublicationAdd BLAST116
Regioni291 – 355Activating domainAdd BLAST65
Regioni355 – 406Interaction with ESR1 and ESR21 PublicationAdd BLAST52
Regioni406 – 530Interaction with NCOA61 PublicationAdd BLAST125

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes the position of regions of compositional bias within the protein and the particular type of amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi9 – 31Basic and acidic residuesSequence analysisAdd BLAST23
Compositional biasi32 – 92Basic residuesSequence analysisAdd BLAST61
Compositional biasi116 – 130Basic residuesSequence analysisAdd BLAST15
Compositional biasi131 – 146Basic and acidic residuesSequence analysisAdd BLAST16

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the splicing factor SR family.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG0147, Eukaryota

Ensembl GeneTree

More...
GeneTreei
ENSGT00940000154468

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q8VH51

Identification of Orthologs from Complete Genome Data

More...
OMAi
HVVHISV

Database of Orthologous Groups

More...
OrthoDBi
873705at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q8VH51

TreeFam database of animal gene trees

More...
TreeFami
TF320448

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.30.70.330, 3 hits

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR012677, Nucleotide-bd_a/b_plait_sf
IPR035979, RBD_domain_sf
IPR029123, RBM39_linker
IPR006509, RBM39_SF
IPR000504, RRM_dom
IPR003954, RRM_dom_euk

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF15519, RBM39linker, 1 hit
PF00076, RRM_1, 2 hits

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00360, RRM, 3 hits
SM00361, RRM_1, 2 hits

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF54928, SSF54928, 2 hits

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR01622, SF-CC1, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS50102, RRM, 2 hits

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequences (3+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 3 <p>This subsection of the 'Sequence' section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by alternative splicing. AlignAdd to basket
Note: Experimental confirmation may be lacking for some isoforms.

This entry has 3 described isoforms and 9 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: Q8VH51-1) [UniParc]FASTAAdd to basket
Also known as: HCC1.4

This isoform has been chosen as the <div> <p><b>What is the canonical sequence?</b><p><a href='/help/canonical_and_isoforms' target='_top'>More...</a></p>canonicali sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MADDIDIEAM LEAPYKKDEN KLNSANGHEE RSKKRKKSKS RSRSHERKRS
60 70 80 90 100
KSKERKRSRD RERKKSKSRE RKRSRSKERR RSRSRSRDRR FRGRYRSPYS
110 120 130 140 150
GPKFNSAIRG KIGLPHSIKL SRRRSRSKSP FRKDKSPVRE PIDNLTPEER
160 170 180 190 200
DARTVFCMQL AARIRPRDLE EFFSTVGKVR DVRMISDRNS RRSKGIAYVE
210 220 230 240 250
FVDVSSVPLA IGLTGQRVLG VPIIVQASQA EKNRAAAMAN NLQKGSAGPM
260 270 280 290 300
RLYVGSLHFN ITEDMLRGIF EPFGRIESIQ LMMDSETGRS KGYGFITFSD
310 320 330 340 350
SECAKKALEQ LNGFELAGRP MKVGHVTERT DASSASSFLD SDELERTGID
360 370 380 390 400
LGTTGRLQLM ARLAEGTGLQ IPPAAQQALQ MSGSLAFGAV AEFSFVIDLQ
410 420 430 440 450
TRLSQQTEAS ALAAAASVQP LATQCFQLSN MFNPQTEEEV GWDTEIKDDV
460 470 480 490 500
IEECNKHGGV IHIYVDKNSA QGNVYVKCPS IAAAIAAVNA LHGRWFAGKM
510 520 530
ITAAYVPLPT YHNLFPDSMT ATQLLVPSRR
Length:530
Mass (Da):59,407
Last modified:July 27, 2011 - v2
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i0CC6103096B7A040
GO
Isoform 2 (identifier: Q8VH51-2) [UniParc]FASTAAdd to basket
Also known as: HCC1.3

The sequence of this isoform differs from the canonical sequence as follows:
     392-397: Missing.

Show »
Length:524
Mass (Da):58,684
Checksum:i2843A619B193697B
GO
Isoform 3 (identifier: Q8VH51-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-157: Missing.
     392-397: Missing.

Show »
Length:367
Mass (Da):39,818
Checksum:i18FCCA033F62CDA3
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 9 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
B7ZD61B7ZD61_MOUSE
RNA-binding protein 39
Rbm39
273Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
E9Q8F0E9Q8F0_MOUSE
RNA-binding protein 39
Rbm39
415Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
B7ZD63B7ZD63_MOUSE
RNA-binding protein 39
Rbm39
156Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
F7AA45F7AA45_MOUSE
RNA-binding protein 39
Rbm39
311Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
E9PZF9E9PZF9_MOUSE
RNA-binding protein 39
Rbm39
39Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
D6RJ85D6RJ85_MOUSE
RNA-binding protein 39
Rbm39
62Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
E9Q999E9Q999_MOUSE
RNA-binding protein 39
Rbm39
47Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
B7ZD64B7ZD64_MOUSE
RNA-binding protein 39
Rbm39
38Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
D6RCZ8D6RCZ8_MOUSE
RNA-binding protein 39
Rbm39
40Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti194K → R in AAL32373 (PubMed:11704680).Curated1
Sequence conflicti208P → R in AAL32373 (PubMed:11704680).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section describes the sequence of naturally occurring alternative protein isoform(s). The changes in the amino acid sequence may be due to alternative splicing, alternative promoter usage, alternative initiation, or ribosomal frameshifting.<p><a href='/help/var_seq' target='_top'>More...</a></p>Alternative sequenceiVSP_0058211 – 157Missing in isoform 3. 1 PublicationAdd BLAST157
Alternative sequenceiVSP_005822392 – 397Missing in isoform 2 and isoform 3. 2 Publications6

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AY061882 mRNA Translation: AAL32373.1
AK147076 mRNA Translation: BAE27657.1
AL929404 Genomic DNA No translation available.
BX649640 Genomic DNA No translation available.
CH466551 Genomic DNA Translation: EDL06184.1
BC004000 mRNA Translation: AAH04000.1
BC030493 mRNA Translation: AAH30493.1
BC086645 mRNA Translation: AAH86645.1

The Consensus CDS (CCDS) project

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CCDSi
CCDS16964.1 [Q8VH51-1]
CCDS71168.1 [Q8VH51-2]

NCBI Reference Sequences

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RefSeqi
NP_001278043.1, NM_001291114.1 [Q8VH51-2]
NP_001278044.1, NM_001291115.1 [Q8VH51-2]
NP_573505.2, NM_133242.3 [Q8VH51-1]
XP_011237628.1, XM_011239326.2
XP_011237629.1, XM_011239327.2 [Q8VH51-3]
XP_017171483.1, XM_017315994.1 [Q8VH51-3]
XP_017171487.1, XM_017315998.1
XP_017171494.1, XM_017316005.1 [Q8VH51-3]
XP_017171497.1, XM_017316008.1 [Q8VH51-3]

Genome annotation databases

Ensembl eukaryotic genome annotation project

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Ensembli
ENSMUST00000029149; ENSMUSP00000029149; ENSMUSG00000027620 [Q8VH51-2]
ENSMUST00000109587; ENSMUSP00000105216; ENSMUSG00000027620 [Q8VH51-1]
ENSMUST00000146297; ENSMUSP00000119298; ENSMUSG00000027620 [Q8VH51-2]

Database of genes from NCBI RefSeq genomes

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GeneIDi
170791

KEGG: Kyoto Encyclopedia of Genes and Genomes

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KEGGi
mmu:170791

UCSC genome browser

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UCSCi
uc008nmr.3, mouse [Q8VH51-1]

Keywords - Coding sequence diversityi

Alternative splicing

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY061882 mRNA Translation: AAL32373.1
AK147076 mRNA Translation: BAE27657.1
AL929404 Genomic DNA No translation available.
BX649640 Genomic DNA No translation available.
CH466551 Genomic DNA Translation: EDL06184.1
BC004000 mRNA Translation: AAH04000.1
BC030493 mRNA Translation: AAH30493.1
BC086645 mRNA Translation: AAH86645.1
CCDSiCCDS16964.1 [Q8VH51-1]
CCDS71168.1 [Q8VH51-2]
RefSeqiNP_001278043.1, NM_001291114.1 [Q8VH51-2]
NP_001278044.1, NM_001291115.1 [Q8VH51-2]
NP_573505.2, NM_133242.3 [Q8VH51-1]
XP_011237628.1, XM_011239326.2
XP_011237629.1, XM_011239327.2 [Q8VH51-3]
XP_017171483.1, XM_017315994.1 [Q8VH51-3]
XP_017171487.1, XM_017315998.1
XP_017171494.1, XM_017316005.1 [Q8VH51-3]
XP_017171497.1, XM_017316008.1 [Q8VH51-3]

3D structure databases

Select the link destinations:

Protein Data Bank Europe

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PDBei

Protein Data Bank RCSB

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RCSB PDBi

Protein Data Bank Japan

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PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2LQ5NMR-A418-530[»]
3S6EX-ray0.95A/B418-530[»]
4J5OX-ray1.11A/B418-530[»]
4RU2X-ray2.20A/C/E/G/I/K/M/O/Q418-530[»]
5CXTX-ray2.20A/C/E/G/I/K/M/O/Q418-530[»]
BMRBiQ8VH51
SMRiQ8VH51
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGRIDi228442, 36 interactors
IntActiQ8VH51, 9 interactors
MINTiQ8VH51
STRINGi10090.ENSMUSP00000105216

PTM databases

iPTMnetiQ8VH51
PhosphoSitePlusiQ8VH51

Proteomic databases

jPOSTiQ8VH51
PaxDbiQ8VH51
PeptideAtlasiQ8VH51
PRIDEiQ8VH51
ProteomicsDBi255129 [Q8VH51-1]
255130 [Q8VH51-2]
255131 [Q8VH51-3]

Protocols and materials databases

Antibodypedia a portal for validated antibodies

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Antibodypediai
459, 229 antibodies

The DNASU plasmid repository

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DNASUi
170791

Genome annotation databases

EnsembliENSMUST00000029149; ENSMUSP00000029149; ENSMUSG00000027620 [Q8VH51-2]
ENSMUST00000109587; ENSMUSP00000105216; ENSMUSG00000027620 [Q8VH51-1]
ENSMUST00000146297; ENSMUSP00000119298; ENSMUSG00000027620 [Q8VH51-2]
GeneIDi170791
KEGGimmu:170791
UCSCiuc008nmr.3, mouse [Q8VH51-1]

Organism-specific databases

Comparative Toxicogenomics Database

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CTDi
9584
MGIiMGI:2157953, Rbm39
VEuPathDBiHostDB:ENSMUSG00000027620

Phylogenomic databases

eggNOGiKOG0147, Eukaryota
GeneTreeiENSGT00940000154468
InParanoidiQ8VH51
OMAiHVVHISV
OrthoDBi873705at2759
PhylomeDBiQ8VH51
TreeFamiTF320448

Miscellaneous databases

BioGRID ORCS database of CRISPR phenotype screens

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BioGRID-ORCSi
170791, 19 hits in 62 CRISPR screens

ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data

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ChiTaRSi
Rbm39, mouse
EvolutionaryTraceiQ8VH51

Protein Ontology

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PROi
PR:Q8VH51
RNActiQ8VH51, protein

The Stanford Online Universal Resource for Clones and ESTs

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SOURCEi
Search...

Gene expression databases

BgeeiENSMUSG00000027620, Expressed in undifferentiated genital tubercle and 318 other tissues
ExpressionAtlasiQ8VH51, baseline and differential
GenevisibleiQ8VH51, MM

Family and domain databases

Gene3Di3.30.70.330, 3 hits
InterProiView protein in InterPro
IPR012677, Nucleotide-bd_a/b_plait_sf
IPR035979, RBD_domain_sf
IPR029123, RBM39_linker
IPR006509, RBM39_SF
IPR000504, RRM_dom
IPR003954, RRM_dom_euk
PfamiView protein in Pfam
PF15519, RBM39linker, 1 hit
PF00076, RRM_1, 2 hits
SMARTiView protein in SMART
SM00360, RRM, 3 hits
SM00361, RRM_1, 2 hits
SUPFAMiSSF54928, SSF54928, 2 hits
TIGRFAMsiTIGR01622, SF-CC1, 1 hit
PROSITEiView protein in PROSITE
PS50102, RRM, 2 hits

MobiDB: a database of protein disorder and mobility annotations

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MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiRBM39_MOUSE
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: Q8VH51
Secondary accession number(s): Q5RJI0, Q99KV0
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 2003
Last sequence update: July 27, 2011
Last modified: September 29, 2021
This is version 180 of the entry and version 2 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families
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