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Entry version 132 (05 Jun 2019)
Sequence version 1 (01 Jun 2001)
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Protein

RNA transcription, translation and transport factor protein

Gene

RTRAF

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

Annotation score:3 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 involved in modulation of mRNA transcription by Polymerase II. Component of the tRNA-splicing ligase complex and is required for tRNA ligation. May be required for RNA transport.By similarity

<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 functionRNA-binding
Biological processTranscription, 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 transcription, translation and transport factor proteinImported
<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:RTRAFImported
<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 14

Organism-specific databases

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

More...
MGIi
MGI:1915295 Rtraf

<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

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Cytoskeleton, 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 ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00000899571 – 244RNA transcription, translation and transport factor proteinAdd BLAST244

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 residuei20N6-acetyllysineBy similarity1
Modified residuei62N6-acetyllysineBy similarity1
Modified residuei98N6-acetyllysineBy similarity1

Keywords - PTMi

Acetylation

Proteomic databases

Encyclopedia of Proteome Dynamics

More...
EPDi
Q9CQE8

jPOST - Japan Proteome Standard Repository/Database

More...
jPOSTi
Q9CQE8

MaxQB - The MaxQuant DataBase

More...
MaxQBi
Q9CQE8

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

More...
PaxDbi
Q9CQE8

PRoteomics IDEntifications database

More...
PRIDEi
Q9CQE8

2D gel databases

REPRODUCTION-2DPAGE

More...
REPRODUCTION-2DPAGEi
Q9CQE8

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
Q9CQE8

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

More...
PhosphoSitePlusi
Q9CQE8

SwissPalm database of S-palmitoylation events

More...
SwissPalmi
Q9CQE8

<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
ENSMUSG00000021807 Expressed in 274 organ(s), highest expression level in bone fossa

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
Q9CQE8 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
Q9CQE8 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

Homodimer.

Interacts with FAM98A (via N- and C-terminus).

Interacts with NIN; which may prevent phosphorylation of NIN.

Interacts with POLR2A.

Component of a tRNA-splicing ligase complex.

By similarity

GO - Molecular functioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...
BioGridi
212624, 6 interactors

Protein interaction database and analysis system

More...
IntActi
Q9CQE8, 6 interactors

Molecular INTeraction database

More...
MINTi
Q9CQE8

STRING: functional protein association networks

More...
STRINGi
10090.ENSMUSP00000022341

<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

3D structure databases

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

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SMRi
Q9CQE8

Database of comparative protein structure models

More...
ModBasei
Search...

<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

<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 RTRAF family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG4380 Eukaryota
ENOG410XRFT LUCA

Ensembl GeneTree

More...
GeneTreei
ENSGT00390000005163

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000039763

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q9CQE8

KEGG Orthology (KO)

More...
KOi
K15433

Identification of Orthologs from Complete Genome Data

More...
OMAi
PMRILRL

Database of Orthologous Groups

More...
OrthoDBi
1239557at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q9CQE8

TreeFam database of animal gene trees

More...
TreeFami
TF323606

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR019265 RTRAF

The PANTHER Classification System

More...
PANTHERi
PTHR15924 PTHR15924, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF10036 RLL, 1 hit

<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>Sequencei

<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.

Q9CQE8-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MFRRKLTALD YHNPSGFNCK DETEFRNFIV WLEDQKIRHY KIEDRGNLRN
60 70 80 90 100
IHSSDWPKFF EKYLKDVNCP FKIQDRQEAI DWLLGLAVRL EYGDNAEKYK
110 120 130 140 150
DLVPDNRKNT DNAAKNAEPL INLDVNNPDF KAGVMALANL LQIQRHDDYL
160 170 180 190 200
VMLKAIRILV QERLTQDAVA KANQTKEGLP VALEKHILGF DTGDAVLNEA
210 220 230 240
AQILRLLHIE ELRELQTKIN EAIVAVQAII ADPKTDHRLG KVGR
Length:244
Mass (Da):28,152
Last modified:June 1, 2001 - v1
<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:i973961CDEB52BBDB
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AK003732 mRNA Translation: BAB22966.1
AK012460 mRNA Translation: BAB28255.1
AK012486 mRNA Translation: BAB28273.1
BC048357 mRNA Translation: AAH48357.1

The Consensus CDS (CCDS) project

More...
CCDSi
CCDS26839.1

NCBI Reference Sequences

More...
RefSeqi
NP_080804.1, NM_026528.3

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENSMUST00000022341; ENSMUSP00000022341; ENSMUSG00000021807

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
68045

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
mmu:68045

UCSC genome browser

More...
UCSCi
uc007siv.1 mouse

<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
AK003732 mRNA Translation: BAB22966.1
AK012460 mRNA Translation: BAB28255.1
AK012486 mRNA Translation: BAB28273.1
BC048357 mRNA Translation: AAH48357.1
CCDSiCCDS26839.1
RefSeqiNP_080804.1, NM_026528.3

3D structure databases

SMRiQ9CQE8
ModBaseiSearch...

Protein-protein interaction databases

BioGridi212624, 6 interactors
IntActiQ9CQE8, 6 interactors
MINTiQ9CQE8
STRINGi10090.ENSMUSP00000022341

PTM databases

iPTMnetiQ9CQE8
PhosphoSitePlusiQ9CQE8
SwissPalmiQ9CQE8

2D gel databases

REPRODUCTION-2DPAGEiQ9CQE8

Proteomic databases

EPDiQ9CQE8
jPOSTiQ9CQE8
MaxQBiQ9CQE8
PaxDbiQ9CQE8
PRIDEiQ9CQE8

Protocols and materials databases

The DNASU plasmid repository

More...
DNASUi
68045

Genome annotation databases

EnsembliENSMUST00000022341; ENSMUSP00000022341; ENSMUSG00000021807
GeneIDi68045
KEGGimmu:68045
UCSCiuc007siv.1 mouse

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
51637
MGIiMGI:1915295 Rtraf

Phylogenomic databases

eggNOGiKOG4380 Eukaryota
ENOG410XRFT LUCA
GeneTreeiENSGT00390000005163
HOGENOMiHOG000039763
InParanoidiQ9CQE8
KOiK15433
OMAiPMRILRL
OrthoDBi1239557at2759
PhylomeDBiQ9CQE8
TreeFamiTF323606

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q9CQE8

The Stanford Online Universal Resource for Clones and ESTs

More...
SOURCEi
Search...

Gene expression databases

BgeeiENSMUSG00000021807 Expressed in 274 organ(s), highest expression level in bone fossa
ExpressionAtlasiQ9CQE8 baseline and differential
GenevisibleiQ9CQE8 MM

Family and domain databases

InterProiView protein in InterPro
IPR019265 RTRAF
PANTHERiPTHR15924 PTHR15924, 1 hit
PfamiView protein in Pfam
PF10036 RLL, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
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 nameiRTRAF_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: Q9CQE8
<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: April 3, 2002
Last sequence update: June 1, 2001
Last modified: June 5, 2019
This is version 132 of the entry and version 1 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

Complete proteome, Reference proteome

Documents

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