Cpsf4 cleavage and polyadenylation specific factor 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Cpsf4provided by RGD
Official Full Name: cleavage and polyadenylation specific factor 4provided by RGD
Primary source: RGD:620440
See related: EnsemblRapid:ENSRNOG00000000985 AllianceGenome:RGD:620440
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
Summary: Predicted to enable sequence-specific double-stranded DNA binding activity. Predicted to be involved in mRNA 3'-end processing. Predicted to be located in nucleoplasm. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Orthologous to human CPSF4 (cleavage and polyadenylation specific factor 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 140.0), Thymus (RPKM 115.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 12p11

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (14543536..14559350, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (9429765..9445586, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (11199893..11215690, complement)

Chromosome 12 - NC_086030.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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 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?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables RNA binding	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in mRNA 3'-end processing	IEA Inferred from Electronic Annotation more info
involved_in mRNA processing	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
part_of mRNA cleavage and polyadenylation specificity factor complex	IBA Inferred from Biological aspect of Ancestor more info
part_of mRNA cleavage and polyadenylation specificity factor complex	IEA Inferred from Electronic Annotation more info
part_of mRNA cleavage and polyadenylation specificity factor complex	ISO Inferred from Sequence Orthology more info
part_of mRNA cleavage and polyadenylation specificity factor complex	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: cleavage and polyadenylation specificity factor subunit 4

Names: CPSF 30 kDa subunit; cleavage and polyadenylation specific factor 4, 30kD subunit; cleavage and polyadenylation specificity factor 30 kDa subunit

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_001012351.3 → NP_001012351.1 cleavage and polyadenylation specificity factor subunit 4 isoform 1

See identical proteins and their annotated locations for NP_001012351.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000012

UniProtKB/Swiss-Prot

Q5FVR7

UniProtKB/TrEMBL

A0A8I5Y5Y1

Related

ENSRNOP00000068209.1, ENSRNOT00000076369.3

Conserved Domains (2) summary

COG5084
Location:25 → 176

YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

COG5222
Location:192 → 232

COG5222; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
NM_001401115.1 → NP_001388044.1 cleavage and polyadenylation specificity factor subunit 4 isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000012

Related

ENSRNOP00000046991.4, ENSRNOT00000042474.8
NM_001401116.1 → NP_001388045.1 cleavage and polyadenylation specificity factor subunit 4 isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000012

Related

ENSRNOP00000085636.2, ENSRNOT00000099433.2