Cpeb3 cytoplasmic polyadenylation element binding protein 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cpeb3provided by RGD
Official Full Name: cytoplasmic polyadenylation element binding protein 3provided by RGD
Primary source: RGD:1564670
See related: Ensembl:ENSRNOG00000020689 AllianceGenome:RGD:1564670
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1564670
Summary: Predicted to enable nucleic acid binding activity and ribosome binding activity. Predicted to be involved in several processes, including long-term memory; positive regulation of mRNA metabolic process; and regulation of cellular macromolecule biosynthetic process. Predicted to act upstream of or within negative regulation of translation. Located in cytoplasm; dendrite; and nucleus. Is active in postsynapse. Orthologous to human CPEB3 (cytoplasmic polyadenylation element binding protein 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 53.4), Muscle (RPKM 45.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q53

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (244161690..244343765, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (234749138..234931219, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (255660165..255842671, complement)

Chromosome 1 - NC_086019.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

cleavage of CPEB3 by NMDA-activated calpain 2 accounts for the activity-related translation of CPEB3-targeted RNAs
Title: Calpain 2 activated through N-methyl-D-aspartic acid receptor signaling cleaves CPEB3 and abrogates CPEB3-repressed translation in neurons.

Submit: New GeneRIF Correction

General gene information

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Markers

PMC170964P1 (e-PCR)
- UniSTS:271627

RH143371 (e-PCR)
- UniSTS:232618

D1Rat118 (e-PCR), detects polymorphism
- UniSTS:227030

RH137295 (e-PCR)
- UniSTS:219383

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	ISO Inferred from Sequence Orthology more info
enables RNA stem-loop binding	ISO Inferred from Sequence Orthology more info
enables mRNA 3'-UTR AU-rich region binding	ISO Inferred from Sequence Orthology more info
enables mRNA 3'-UTR binding	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA 3'-UTR binding	ISO Inferred from Sequence Orthology more info
enables mRNA regulatory element binding translation repressor activity	IBA Inferred from Biological aspect of Ancestor more info
enables mRNA regulatory element binding translation repressor activity	ISO Inferred from Sequence Orthology more info
enables ribosome binding	IBA Inferred from Biological aspect of Ancestor more info
enables translation factor activity, RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables translation factor activity, RNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in 3'-UTR-mediated mRNA destabilization	ISO Inferred from Sequence Orthology more info
involved_in cellular response to amino acid stimulus	ISO Inferred from Sequence Orthology more info
involved_in long-term memory	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cytoplasmic translation	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of cytoplasmic translational elongation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of dendritic spine development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of long-term synaptic potentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of nuclear-transcribed mRNA poly(A) tail shortening	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of translation	ISO Inferred from Sequence Orthology more info
involved_in regulation of dendritic spine development	ISO Inferred from Sequence Orthology more info
involved_in regulation of postsynapse assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of synaptic plasticity	ISO Inferred from Sequence Orthology more info
involved_in thermoception	ISO Inferred from Sequence Orthology more info
acts_upstream_of translation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of CCR4-NOT complex	ISO Inferred from Sequence Orthology more info
located_in apical dendrite	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in dendrite	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
part_of messenger ribonucleoprotein complex	IBA Inferred from Biological aspect of Ancestor more info
located_in midbody	IEA Inferred from Electronic Annotation more info
located_in midbody	ISO Inferred from Sequence Orthology more info
is_active_in neuron projection	IBA Inferred from Biological aspect of Ancestor more info
located_in neuron projection	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in postsynapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynapse	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in synapse	IBA Inferred from Biological aspect of Ancestor more info
located_in synapse	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: cytoplasmic polyadenylation element-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)

NM_001419824.1 → NP_001406753.1 cytoplasmic polyadenylation element-binding protein 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000001

UniProtKB/TrEMBL

A0A8I6GA10, A6I161

Related

ENSRNOP00000082858.1, ENSRNOT00000114370.1
NM_001419825.1 → NP_001406754.1 cytoplasmic polyadenylation element-binding protein 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000001

UniProtKB/TrEMBL

A0A8I6GA10, A6I161

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086019.1 Reference GRCr8

Range

244161690..244343765 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017590350.3 → XP_017445839.1 cytoplasmic polyadenylation element-binding protein 3 isoform X5

UniProtKB/TrEMBL

A0A8I6GA10, A6I161
XM_063265169.1 → XP_063121239.1 cytoplasmic polyadenylation element-binding protein 3 isoform X6

UniProtKB/TrEMBL

A0A8I5Y6H1, A6I161
XM_063265176.1 → XP_063121246.1 cytoplasmic polyadenylation element-binding protein 3 isoform X8

UniProtKB/TrEMBL

A6I161
XM_063265178.1 → XP_063121248.1 cytoplasmic polyadenylation element-binding protein 3 isoform X8

UniProtKB/TrEMBL

A6I161
XM_017590348.3 → XP_017445837.1 cytoplasmic polyadenylation element-binding protein 3 isoform X5

UniProtKB/TrEMBL

A0A8I6GA10, A6I161
XM_017590344.3 → XP_017445833.1 cytoplasmic polyadenylation element-binding protein 3 isoform X1
XM_017590345.3 → XP_017445834.1 cytoplasmic polyadenylation element-binding protein 3 isoform X3

UniProtKB/TrEMBL

D4AD99

Related

ENSRNOP00000040393.5
XM_008760380.4 → XP_008758602.1 cytoplasmic polyadenylation element-binding protein 3 isoform X4

UniProtKB/TrEMBL

A6I161

Conserved Domains (4) summary

COG0724
Location:487 → 653

RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]

cd12724
Location:491 → 582

RRM1_CPEB2_like; RNA recognition motif 1 in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens

cd12726
Location:599 → 679

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:674 → 735

CEBP_ZZ; Cytoplasmic polyadenylation element-binding protein ZZ domain
XM_008760379.4 → XP_008758601.1 cytoplasmic polyadenylation element-binding protein 3 isoform X2

Conserved Domains (4) summary

COG0724
Location:510 → 676

RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]

cd12724
Location:514 → 605

RRM1_CPEB2_like; RNA recognition motif 1 in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens

cd12726
Location:622 → 702

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:697 → 758

CEBP_ZZ; Cytoplasmic polyadenylation element-binding protein ZZ domain
XM_017590347.3 → XP_017445836.1 cytoplasmic polyadenylation element-binding protein 3 isoform X5

UniProtKB/TrEMBL

A0A8I6GA10, A6I161
XM_017590351.3 → XP_017445840.1 cytoplasmic polyadenylation element-binding protein 3 isoform X5

UniProtKB/TrEMBL

A0A8I6GA10, A6I161
XM_039101407.2 → XP_038957335.1 cytoplasmic polyadenylation element-binding protein 3 isoform X7

Conserved Domains (3) summary

NF033201
Location:95 → 146

Vip_LPXTG_Lm; cell invasion LPXTG protein Vip

cd12724
Location:522 → 613

RRM1_CPEB2_like; RNA recognition motif 1 (RRM1) found in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens

cd12726
Location:630 → 704

RRM2_CPEB2_like; RNA recognition motif 2 (RRM2) found in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens
XM_017590352.3 → XP_017445841.1 cytoplasmic polyadenylation element-binding protein 3 isoform X9