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pcbp3 poly(rC) binding protein 3 [ Danio rerio (zebrafish) ]

Gene ID: 553765, updated on 2-Nov-2024

Summary

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Official Symbol
pcbp3provided by ZNC
Official Full Name
poly(rC) binding protein 3provided by ZNC
Primary source
ZFIN:ZDB-GENE-050522-157
See related
Ensembl:ENSDARG00000054378 AllianceGenome:ZFIN:ZDB-GENE-050522-157
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zgc:109966
Summary
Predicted to enable mRNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in cytoplasm and nucleus. Is expressed in several structures, including brain; otic vesicle; pleuroperitoneal region; retina; and tail bud. Orthologous to human PCBP3 (poly(rC) binding protein 3). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
all
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Genomic context

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See pcbp3 in Genome Data Viewer
Location:
chromosome: 9
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 9 NC_007120.7 (41995886..42133111)
105 previous assembly GRCz10 (GCF_000002035.5) 9 NC_007120.6 (42194039..42325441)

Chromosome 9 - NC_007120.7Genomic Context describing neighboring genes Neighboring gene si:dkeyp-30e7.2 Neighboring gene collagen type XVIII alpha 1 chain a Neighboring gene leucine rich repeat containing 3 Neighboring gene uncharacterized LOC137496415

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Expression patterns of pcbp gene family members during zebrafish embryogenesis. Wang J, et al. Gene Expr Patterns, 2020 Jan. PMID 32007595
  2. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
  3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC109966

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
poly(rC)-binding protein 3

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001020731.2 → NP_001018567.1  poly(rC)-binding protein 3 isoform 2

    See identical proteins and their annotated locations for NP_001018567.1

    Status: PROVISIONAL

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    BX247868
    UniProtKB/TrEMBL
    B2GRD8, Q504B8
    Related
    ENSDARP00000016097.9, ENSDART00000015267.11
    Conserved Domains (1) summary
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...

  2. NM_001328142.1 → NP_001315071.1  poly(rC)-binding protein 3 isoform 1

    Status: PROVISIONAL

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    BX247868
    UniProtKB/TrEMBL
    A0A8M1P4F1, A8WHQ1, E7FD26
    Related
    ENSDARP00000146158.1, ENSDART00000185311.1
    Conserved Domains (2) summary
    cd00105
    Location:268 → 330
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007120.7 Reference GRCz11 Primary Assembly

    Range
    41995886..42133111
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021478669.2 → XP_021334344.1  poly(rC)-binding protein 3 isoform X1

    UniProtKB/TrEMBL
    A0A8M9Q4K7
    Conserved Domains (3) summary
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    pfam00013
    Location:276 → 340
    KH_1; KH domain
    pfam15991
    Location:214 → 277
    G_path_suppress; G-protein pathway suppressor

  2. XM_021478668.2 → XP_021334343.1  poly(rC)-binding protein 3 isoform X1

    UniProtKB/TrEMBL
    A0A8M9Q4K7
    Conserved Domains (3) summary
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    pfam00013
    Location:276 → 340
    KH_1; KH domain
    pfam15991
    Location:214 → 277
    G_path_suppress; G-protein pathway suppressor

  3. XM_021478673.2 → XP_021334348.1  poly(rC)-binding protein 3 isoform X2

    UniProtKB/TrEMBL
    A0A8M9Q4K9
    Conserved Domains (3) summary
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    pfam00013
    Location:276 → 340
    KH_1; KH domain
    pfam15991
    Location:214 → 277
    G_path_suppress; G-protein pathway suppressor

  4. XM_009304883.4 → XP_009303158.1  poly(rC)-binding protein 3 isoform X3

    See identical proteins and their annotated locations for XP_009303158.1

    UniProtKB/TrEMBL
    A0A8M1P4F1, A8WHQ1, E7FD26
    Conserved Domains (2) summary
    cd00105
    Location:268 → 330
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...

  5. XM_009304888.4 → XP_009303163.1  poly(rC)-binding protein 3 isoform X15

    UniProtKB/TrEMBL
    A0A8M3BCM1, A8WHQ0
    Related
    ENSDARP00000116994.1, ENSDART00000134431.3
    Conserved Domains (2) summary
    cd00105
    Location:268 → 330
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...

  6. XM_005167892.5 → XP_005167949.1  poly(rC)-binding protein 3 isoform X4

    UniProtKB/TrEMBL
    A0A8M2BFD0
    Conserved Domains (2) summary
    cd00105
    Location:267 → 329
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...

  7. XM_009304893.4 → XP_009303168.1  poly(rC)-binding protein 3 isoform X5

    UniProtKB/TrEMBL
    A0A8M3BCM4
    Conserved Domains (2) summary
    cd00105
    Location:267 → 329
    KH-I; K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that ...
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...

  8. XM_021478674.2 → XP_021334349.1  poly(rC)-binding protein 3 isoform X6

    UniProtKB/TrEMBL
    A0A8M9QAQ6
    Conserved Domains (2) summary
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    pfam00013
    Location:253 → 317
    KH_1; KH domain

  9. XM_021478675.2 → XP_021334350.1  poly(rC)-binding protein 3 isoform X7

    UniProtKB/TrEMBL
    A0A8M9QJN3
    Conserved Domains (2) summary
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    pfam00013
    Location:253 → 317
    KH_1; KH domain

  10. XM_009304889.4 → XP_009303164.1  poly(rC)-binding protein 3 isoform X8

    UniProtKB/TrEMBL
    A0A8M3AW92
    Conserved Domains (3) summary
    cd22516
    Location:8 → 84
    KH-I_PCBP3_rpt1; first type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
    cd22519
    Location:95 → 173
    KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
    cd22522
    Location:236 → 310
    KH-I_PCBP3_rpt3; third type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins

  11. XM_009304891.4 → XP_009303166.1  poly(rC)-binding protein 3 isoform X10

    UniProtKB/TrEMBL
    A0A8M3B2W1
    Conserved Domains (3) summary
    cd22519
    Location:95 → 173
    KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
    cd22522
    Location:236 → 310
    KH-I_PCBP3_rpt3; third type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
    cl00098
    Location:8 → 84
    KH-I; K homology (KH) RNA-binding domain, type I

  12. XM_009304890.4 → XP_009303165.1  poly(rC)-binding protein 3 isoform X9

    UniProtKB/TrEMBL
    A0A8M3B5U9
    Conserved Domains (3) summary
    cd22519
    Location:95 → 173
    KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
    cd22522
    Location:235 → 309
    KH-I_PCBP3_rpt3; third type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
    cl00098
    Location:8 → 84
    KH-I; K homology (KH) RNA-binding domain, type I

  13. XM_005167894.5 → XP_005167951.1  poly(rC)-binding protein 3 isoform X11

    UniProtKB/TrEMBL
    A0A8M2BFZ7
    Conserved Domains (3) summary
    cd22519
    Location:95 → 173
    KH-I_PCBP3_rpt2; second type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
    cd22522
    Location:235 → 309
    KH-I_PCBP3_rpt3; third type I K homology (KH) RNA-binding domain found in poly(rC)-binding protein 3 (PCBP3) and similar proteins
    cl00098
    Location:8 → 84
    KH-I; K homology (KH) RNA-binding domain, type I

  14. XM_021478676.2 → XP_021334351.1  poly(rC)-binding protein 3 isoform X12

    UniProtKB/TrEMBL
    A0A8M9QFF0
    Conserved Domains (2) summary
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    pfam00013
    Location:228 → 292
    KH_1; KH domain

  15. XM_021478677.2 → XP_021334352.1  poly(rC)-binding protein 3 isoform X13

    UniProtKB/TrEMBL
    A0A8M9PS48
    Conserved Domains (2) summary
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    pfam00013
    Location:220 → 284
    KH_1; KH domain

  16. XM_021478678.2 → XP_021334353.1  poly(rC)-binding protein 3 isoform X14

    UniProtKB/TrEMBL
    A0A8M9Q4L3
    Conserved Domains (2) summary
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    pfam00013
    Location:219 → 283
    KH_1; KH domain

  17. XM_021478680.2 → XP_021334355.1  poly(rC)-binding protein 3 isoform X16

    UniProtKB/TrEMBL
    A0A8M9QJN8
    Conserved Domains (2) summary
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    pfam00013
    Location:219 → 283
    KH_1; KH domain

  18. XM_021478670.2 → XP_021334345.1  poly(rC)-binding protein 3 isoform X1

    UniProtKB/TrEMBL
    A0A8M9Q4K7
    Conserved Domains (3) summary
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    pfam00013
    Location:276 → 340
    KH_1; KH domain
    pfam15991
    Location:214 → 277
    G_path_suppress; G-protein pathway suppressor

  19. XM_021478672.2 → XP_021334347.1  poly(rC)-binding protein 3 isoform X1

    UniProtKB/TrEMBL
    A0A8M9Q4K7
    Conserved Domains (3) summary
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    pfam00013
    Location:276 → 340
    KH_1; KH domain
    pfam15991
    Location:214 → 277
    G_path_suppress; G-protein pathway suppressor

  20. XM_021478671.2 → XP_021334346.1  poly(rC)-binding protein 3 isoform X1

    UniProtKB/TrEMBL
    A0A8M9Q4K7
    Conserved Domains (3) summary
    cd02396
    Location:101 → 165
    PCBP_like_KH; K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are ...
    pfam00013
    Location:276 → 340
    KH_1; KH domain
    pfam15991
    Location:214 → 277
    G_path_suppress; G-protein pathway suppressor
Nucleotide Protein
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