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UniProtKB - A0A0R4IC37 (CPSF1_DANRE)

Entry version 30 (23 Feb 2022)
Sequence version 2 (20 Jun 2018)
Previous versions | rss
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Protein

Cleavage and polyadenylation specificity factor subunit 1

Gene

cpsf1

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score:

Annotation score:4 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>-Protein inferred from homologyi <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

Component of the cleavage and polyadenylation specificity factor (CPSF) complex that plays a key role in pre-mRNA 3'-end formation, recognizing the AAUAAA signal sequence and interacting with poly(A) polymerase and other factors to bring about cleavage and poly(A) addition. This subunit is involved in the RNA recognition step of the polyadenylation reaction (By similarity).

Plays a role in eye morphogenesis and the development of retinal ganglion cell projections to the tectum (PubMed:30689892).

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

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...Reactomei		R-DRE-72163, mRNA Splicing - Major Pathway
R-DRE-72187, mRNA 3'-end processing
R-DRE-77595, Processing of Intronless Pre-mRNAs

<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%5Fand%5Ftaxonomy%5Fsection">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:
Cleavage and polyadenylation specificity factor subunit 1By similarity
Alternative name(s):
Cleavage and polyadenylation specific factor 1Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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:cpsf1Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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>OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 identifieri7955 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 lineageiEukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Actinopterygii › Neopterygii › Teleostei › Ostariophysi › Cypriniformes › Danionidae › Danioninae › Danio
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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
  • UP000000437 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">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 19

Organism-specific databases

Zebrafish Information Network genome database

More...ZFINi		ZDB-GENE-040709-2, cpsf1

<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

<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>Keywords - Cellular componenti

Nucleus

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the 'Pathology and Biotech' section describes the in vivo effects caused by ablation of the gene (or one or more transcripts) coding for the protein described in the entry. This includes gene knockout and knockdown, provided experiments have been performed in the context of a whole organism or a specific tissue, and not at the single-cell level.<p><a href='/help/disruption_phenotype' target='_top'>More...</a></p>Disruption phenotypei

Morpholino knockdown results in abnormal eye morphogenesis, small eye size, and reduced number of retinal ganglion cell projections to the tectum.1 Publication

<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 or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004517181 – 1451Cleavage and polyadenylation specificity factor subunit 1Add BLAST1451

<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

ExpressionAtlas, Differential and Baseline Expression

More...ExpressionAtlasi		A0A0R4IC37, baseline and differential

<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

Protein-protein interaction databases

STRING: functional protein association networks

More...STRINGi		7955.ENSDARP00000098742

<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

More...SMRi		A0A0R4IC37

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

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>Regioni401 – 432DisorderedSequence analysisAdd BLAST32
Regioni548 – 572DisorderedSequence analysisAdd BLAST25
Regioni753 – 789DisorderedSequence analysisAdd BLAST37

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a short (usually not more than 20 amino acids) conserved sequence motif of biological significance.<p><a href='/help/motif' target='_top'>More...</a></p>Motifi901 – 916Nuclear localization signalSequence analysisAdd BLAST16

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 biasi401 – 426Basic and acidic residuesSequence analysisAdd BLAST26
Compositional biasi755 – 785Polar residuesSequence analysisAdd BLAST31

<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 CPSF1 family.Curated

Phylogenomic databases

Ensembl GeneTree

More...GeneTreei		ENSGT00950000183151

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		2.130.10.10, 2 hits

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR004871, Cleavage/polyA-sp_fac_asu_C
IPR018846, Cleavage/polyA-sp_fac_asu_N
IPR015943, WD40/YVTN_repeat-like_dom_sf

Pfam protein domain database

More...Pfami		View protein in Pfam
PF03178, CPSF_A, 1 hit
PF10433, MMS1_N, 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%5Flength">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>Sequence (1+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">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.

This entry has 1 described isoform and 5 potential isoforms that are computationally mapped.Show allAlign All

A0A0R4IC37-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MYAVYRQAHP PTAVEFAVYC NFISSQEKNL VVAGTSQLYV YRIIYDVEST 
        60         70         80         90        100
SKSEKSSDGK SRKEKLEQVA SFSLFGNVMS MASVQLVGTN RDALLLSFKD 
       110        120        130        140        150
AKLSVVEYDP GTHDLKTLSL HYFEEPELRD GFVQNVHIPM VRVDPENRCA 
       160        170        180        190        200
VMLVYGTCLV VLPFRKDTLA DEQEGIVGEG QKSSFLPSYI IDVRELDEKL 
       210        220        230        240        250
LNIIDMKFLH GYYEPTLLIL FEPNQTWPGR VAVRQDTCSI VAISLNIMQK 
       260        270        280        290        300
VHPVIWSLSN LPFDCNQVMA VPKPIGGVVV FAVNSLLYLN QSVPPFGVSL 
       310        320        330        340        350
NSLTNGTTAF PLRPQEEVKI TLDCSQASFI TSDKMVISLK GGEIYVLTLI 
       360        370        380        390        400
TDGMRSVRAF HFDKAAASVL TTCMMTMEPG YLFLGSRLGN SLLLRYTEKL 
       410        420        430        440        450
QETPMEEGKE NEEKEKQEEP PNKKKRVDSN WAGCPGKGNL PDELDEIEVY 
       460        470        480        490        500
GSEAQSGTQL ATYSFEVCDS ILNIGPCASA SMGEPAFLSE EFQTNPEPDL 
       510        520        530        540        550
EVVVCSGYGK NGALSVLQKS IRPQVVTTFE LPGCHDMWTV IYCEEKPEKP 
       560        570        580        590        600
SAEGDGESPE EEKREPTIED DKKKHGFLIL SREDSTMILQ TGQEIMELDT 
       610        620        630        640        650
SGFATQGPTV YAGNIGDNKY IIQVSPMGIR LLEGVNQLHF IPVDLGSPIV 
       660        670        680        690        700
HCSVADPYVV IMTAEGVVTM FVLKNDSYMG KSHRLALQKP QIHTQSRVIT 
       710        720        730        740        750
LCAYRDVSGM FTTENKVSFL AKEEIAIRTN SETETIIQDI SNTVDDEEEM 
       760        770        780        790        800
LYGESNPLTS PNKEESSRGS AAASSAHTGK ESGSGRQEPS HWCLLVRENG 
       810        820        830        840        850
VMEIYQLPDW RLVFLVKNFP VGQRVLVDSS ASQSATQGEL KKEEVTRQGD 
       860        870        880        890        900
IPLVKEVALV SLGYNHSRPY LLAHVEQELL IYEAFPYDQQ QAQSNLKVRF 
       910        920        930        940        950
KKMPHNINYR EKKVKVRKDK KPEGQGEDTL GVKGRVARFR YFQDISGYSG 
       960        970        980        990       1000
VFICGPSPHW MLVTSRGAMR LHPMTIDGAI ESFSPFHNIN CPKGFLYFNK 
      1010       1020       1030       1040       1050
QGELRISVLP TYLSYDAPWP VRKIPLRCTV HYVSYHVESK VYAVCTSVKE 
      1060       1070       1080       1090       1100
PCTRIPRMTG EEKEFETIER DERYIHPQQD KFSIQLISPV SWEAIPNTRV 
      1110       1120       1130       1140       1150
DLEEWEHVTC MKTVALKSQE TVSGLKGYVA LGTCLMQGEE VTCRGRILIL 
      1160       1170       1180       1190       1200
DVIEVVPEPG QPLTKNKFKV LYEKEQKGPV TALCHCSGFL VSAIGQKIFL 
      1210       1220       1230       1240       1250
WSLKDNDLTG MAFIDTQLYI HQMYSIKNFI LAADVMKSIS LLRYQPESKT 
      1260       1270       1280       1290       1300
LSLVSRDAKP LEVYSIEFMV DNNQLGFLVS DRDKNLMVYM YLPEAKESFG 
      1310       1320       1330       1340       1350
GMRLLRRADF NVGSHVNAFW RMPCRGTLDT ANKKALTWDN KHITWFATLD 
      1360       1370       1380       1390       1400
GGVGLLLPMQ EKTYRRLLML QNALTTMLPH HAGLNPKAFR MLHCDRRTLQ 
      1410       1420       1430       1440       1450
NAVKNILDGE LLNKYLYLST MERSELAKKI GTTPDIILDD LLEIERVTAH 

F
Length:1,451
Mass (Da):163,195
Last modified:June 20, 2018 - 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:i54542B0C25BD9FB9
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 5 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A0R4IJ92A0A0R4IJ92_DANRE
Poly [ADP-ribose] polymerase
parp10 cpsf1, si:ch1073-296d18.1
1,125Annotation score:

Annotation score:2 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>
A0A2R8RJW1A0A2R8RJW1_DANRE
Poly [ADP-ribose] polymerase
parp10
1,178Annotation score:

Annotation score:2 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>
E7F8U3E7F8U3_DANRE
Poly [ADP-ribose] polymerase
parp10
581Annotation score:

Annotation score:2 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>
F6NXE7F6NXE7_DANRE
Cleavage and polyadenylation-specif...
cpsf1
1,448Annotation 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>
A0A0R4IH63A0A0R4IH63_DANRE
Cleavage and polyadenylation-specif...
cpsf1
400Annotation 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>

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
CU467825 Genomic DNA No translation available.
FP236813 Genomic DNA No translation available.
FP325126 Genomic DNA No translation available.
LO018649 Genomic DNA No translation available.

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...Ensembli		ENSDART00000163478; ENSDARP00000130523; ENSDARG00000034178

<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
CU467825 Genomic DNA No translation available.
FP236813 Genomic DNA No translation available.
FP325126 Genomic DNA No translation available.
LO018649 Genomic DNA No translation available.

3D structure databases

SMRiA0A0R4IC37
ModBaseiSearch...

Protein-protein interaction databases

STRINGi7955.ENSDARP00000098742

Genome annotation databases

EnsembliENSDART00000163478; ENSDARP00000130523; ENSDARG00000034178

Organism-specific databases

ZFINiZDB-GENE-040709-2, cpsf1

Phylogenomic databases

GeneTreeiENSGT00950000183151

Enzyme and pathway databases

ReactomeiR-DRE-72163, mRNA Splicing - Major Pathway
R-DRE-72187, mRNA 3'-end processing
R-DRE-77595, Processing of Intronless Pre-mRNAs

Gene expression databases

ExpressionAtlasiA0A0R4IC37, baseline and differential

Family and domain databases

Gene3Di2.130.10.10, 2 hits
InterProiView protein in InterPro
IPR004871, Cleavage/polyA-sp_fac_asu_C
IPR018846, Cleavage/polyA-sp_fac_asu_N
IPR015943, WD40/YVTN_repeat-like_dom_sf
PfamiView protein in Pfam
PF03178, CPSF_A, 1 hit
PF10433, MMS1_N, 1 hit

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 nameiCPSF1_DANRE
<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: A0A0R4IC37
<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%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 2, 2020
Last sequence update: June 20, 2018
Last modified: February 23, 2022
This is version 30 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

Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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