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CPEB4 cytoplasmic polyadenylation element binding protein 4 [ Homo sapiens (human) ]

Gene ID: 80315, updated on 29-Mar-2020

Summary

Official Symbol
CPEB4provided by HGNC
Official Full Name
cytoplasmic polyadenylation element binding protein 4provided by HGNC
Primary source
HGNC:HGNC:21747
See related
Ensembl:ENSG00000113742 MIM:610607
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CPE-BP4; hCPEB-4
Expression
Ubiquitous expression in adrenal (RPKM 26.5), bone marrow (RPKM 18.8) and 25 other tissues See more
Orthologs

Genomic context

See CPEB4 in Genome Data Viewer
Location:
5q35.2
Exon count:
12
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 5 NC_000005.10 (173888328..173961980)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (173315331..173387313)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene CRISPRi-validated cis-regulatory element chr5.4561 Neighboring gene CRISPRi-validated cis-regulatory element chr5.4562 Neighboring gene chromosome 5 open reading frame 47 Neighboring gene ribosomal protein L12 pseudogene 22

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association study in multiple human prion diseases suggests genetic risk factors additional to PRNP.
NHGRI GWA Catalog
Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
NHGRI GWA Catalog
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
NHGRI GWA Catalog
Meta-analysis identifies 13 new loci associated with waist-hip ratio and reveals sexual dimorphism in the genetic basis of fat distribution.
NHGRI GWA Catalog
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
NHGRI GWA Catalog

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA1673

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
mRNA 3'-UTR binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
ribosome binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
translation factor activity, RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
translation repressor activity, mRNA regulatory element binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
cellular response to amino acid stimulus ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to decreased oxygen levels ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to glucose starvation ISS
Inferred from Sequence or Structural Similarity
more info
 
ionotropic glutamate receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of cytoplasmic translation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of neuron apoptotic process ISS
Inferred from Sequence or Structural Similarity
more info
 
response to ischemia ISS
Inferred from Sequence or Structural Similarity
more info
 
translation IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
dendrite ISS
Inferred from Sequence or Structural Similarity
more info
 
dendritic spine IEA
Inferred from Electronic Annotation
more info
 
endoplasmic reticulum ISS
Inferred from Sequence or Structural Similarity
more info
 
growth cone IEA
Inferred from Electronic Annotation
more info
 
messenger ribonucleoprotein complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
neuron projection IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 
perinuclear region of cytoplasm IEA
Inferred from Electronic Annotation
more info
 
postsynaptic density ISS
Inferred from Sequence or Structural Similarity
more info
 
synapse IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
cytoplasmic polyadenylation element-binding protein 4
Names
CPE-binding protein 4

NCBI Reference Sequences (RefSeq)

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_001308189.2NP_001295118.1  cytoplasmic polyadenylation element-binding protein 4 isoform b

    See identical proteins and their annotated locations for NP_001295118.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the central coding region, compared to variant 1, resulting in an isoform (b) that is shorter than isoform a.
    Source sequence(s)
    AB051460, AC093275, AI742270, BC143958, BQ061431, BU629646, BX538213, CR741268, DA803281, R64139
    Consensus CDS
    CCDS78086.1
    UniProtKB/Swiss-Prot
    Q17RY0
    Related
    ENSP00000334533.5, ENST00000334035.9
    Conserved Domains (3) summary
    cd12724
    Location:455546
    RRM1_CPEB2_like; RNA recognition motif 1 in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens
    cd12726
    Location:563643
    RRM2_CPEB2_like; RNA recognition motif 2 found in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens
    pfam16366
    Location:638699
    CEBP_ZZ; Cytoplasmic polyadenylation element-binding protein ZZ domain
  2. NM_001308191.2NP_001295120.1  cytoplasmic polyadenylation element-binding protein 4 isoform c

    See identical proteins and their annotated locations for NP_001295120.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks two alternate in-frame exons in the central coding region, compared to variant 1, resulting in an isoform (c) that is shorter than isoform a.
    Source sequence(s)
    AB051460, AC093275, AI742270, BC143959, BQ061431, BU629646, BX538213, CR741268, DA803281, R64139
    Consensus CDS
    CCDS78087.1
    UniProtKB/Swiss-Prot
    Q17RY0
    UniProtKB/TrEMBL
    B7ZLQ8
    Related
    ENSP00000429092.1, ENST00000520867.5
    Conserved Domains (3) summary
    cd12724
    Location:447538
    RRM1_CPEB2_like; RNA recognition motif 1 in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens
    cd12726
    Location:555635
    RRM2_CPEB2_like; RNA recognition motif 2 found in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens
    pfam16366
    Location:630691
    CEBP_ZZ; Cytoplasmic polyadenylation element-binding protein ZZ domain
  3. NM_001308192.1NP_001295121.1  cytoplasmic polyadenylation element-binding protein 4 isoform d

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains an alternate 5' terminal exon, resulting in an alternate 5' UTR and translation initiation at a downstream in-frame start codon, and it also lacks an alternate in-frame exon in the central coding region, compared to variant 1. The encoded isoform (d) is shorter at the N-terminus and lacks an internal segment, compared to isoform a.
    Source sequence(s)
    AB051460, AI742270, BC036899, BX401008, BX538213, CR741268, R64139
    Consensus CDS
    CCDS83043.1
    UniProtKB/Swiss-Prot
    Q17RY0
    UniProtKB/TrEMBL
    E5RFP2
    Related
    ENSP00000430345.1, ENST00000522336.5
    Conserved Domains (3) summary
    cd12724
    Location:82173
    RRM1_CPEB2_like; RNA recognition motif 1 in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens
    cd12726
    Location:190270
    RRM2_CPEB2_like; RNA recognition motif 2 found in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens
    pfam16366
    Location:265326
    CEBP_ZZ; Cytoplasmic polyadenylation element-binding protein ZZ domain
  4. NM_001308193.1NP_001295122.1  cytoplasmic polyadenylation element-binding protein 4 isoform e

    See identical proteins and their annotated locations for NP_001295122.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) contains an alternate 5' terminal exon, resulting in an alternate 5' UTR and translation initiation at a downstream in-frame start codon, and it also lacks two alternate in-frame exons in the central coding region, compared to variant 1. The encoded isoform (e) is shorter at the N-terminus and lacks an internal segment, compared to isoform a.
    Source sequence(s)
    AB051460, AI742270, BC036899, BX401008, BX538213, CR741268, R64139
    Consensus CDS
    CCDS83044.1
    UniProtKB/Swiss-Prot
    Q17RY0
    Related
    ENSP00000427990.1, ENST00000517880.1
    Conserved Domains (3) summary
    cd12724
    Location:65156
    RRM1_CPEB2_like; RNA recognition motif 1 in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens
    cd12726
    Location:173253
    RRM2_CPEB2_like; RNA recognition motif 2 found in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens
    pfam16366
    Location:248309
    CEBP_ZZ; Cytoplasmic polyadenylation element-binding protein ZZ domain
  5. NM_030627.4NP_085130.2  cytoplasmic polyadenylation element-binding protein 4 isoform a

    See identical proteins and their annotated locations for NP_085130.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AB051460, AC093275, AI742270, BC117150, BQ061431, BU629646, BX538213, CR741268, DA803281, R64139
    Consensus CDS
    CCDS4390.1
    UniProtKB/Swiss-Prot
    Q17RY0
    Related
    ENSP00000265085.5, ENST00000265085.10
    Conserved Domains (3) summary
    cd12724
    Location:472563
    RRM1_CPEB2_like; RNA recognition motif 1 in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens
    cd12726
    Location:580660
    RRM2_CPEB2_like; RNA recognition motif 2 found in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens
    pfam16366
    Location:655716
    CEBP_ZZ; Cytoplasmic polyadenylation element-binding protein ZZ domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000005.10 Reference GRCh38.p13 Primary Assembly

    Range
    173888328..173961980
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005265994.1XP_005266051.1  cytoplasmic polyadenylation element-binding protein 4 isoform X1

    See identical proteins and their annotated locations for XP_005266051.1

    Conserved Domains (3) summary
    cd12724
    Location:464555
    RRM1_CPEB2_like; RNA recognition motif 1 in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens
    cd12726
    Location:572652
    RRM2_CPEB2_like; RNA recognition motif 2 found in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens
    pfam16366
    Location:647708
    CEBP_ZZ; Cytoplasmic polyadenylation element-binding protein ZZ domain
  2. XM_011534660.2XP_011532962.1  cytoplasmic polyadenylation element-binding protein 4 isoform X2

  3. XM_011534661.2XP_011532963.1  cytoplasmic polyadenylation element-binding protein 4 isoform X3

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