cpsf4 cleavage and polyadenylation specific factor 4 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: cpsf4provided by ZNC
Official Full Name: cleavage and polyadenylation specific factor 4provided by ZNC
Primary source: ZFIN:ZDB-GENE-990415-180
See related: Ensembl:ENSDARG00000020217 AllianceGenome:ZFIN:ZDB-GENE-990415-180
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: nar
Summary: Predicted to enable RNA binding activity and zinc ion binding activity. Acts upstream of or within eye photoreceptor cell development. Predicted to be located in nucleus. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Is expressed in unfertilized egg. Orthologous to human CPSF4 (cleavage and polyadenylation specific factor 4). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 3

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	3	NC_007114.7 (40289412..40295255)
105	previous assembly	GRCz10 (GCF_000002035.5)	3	NC_007114.6 (40147564..40153394)

Chromosome 3 - NC_007114.7 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: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

fa03a03.s1 (e-PCR)
- UniSTS:189519

nar (e-PCR), detects polymorphism
- UniSTS:186998

nar (e-PCR), detects polymorphism
- UniSTS:205561

Gene Ontology Provided by ZFIN

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 nucleic acid binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within eye photoreceptor cell development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mRNA 3'-end processing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mRNA processing	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of mRNA cleavage and polyadenylation specificity factor complex	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: cleavage and polyadenylation specificity factor subunit 4

Names: no arches

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_131009.1 → NP_571084.1 cleavage and polyadenylation specificity factor subunit 4

See identical proteins and their annotated locations for NP_571084.1

Status: PROVISIONAL

Source sequence(s)

U70479

UniProtKB/TrEMBL

Q98881

Related

ENSDARP00000007713.5, ENSDART00000017304.6

Conserved Domains (2) summary

smart00356
Location:63 → 88

ZnF_C3H1; zinc finger

COG5084
Location:38 → 218

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

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

NC_007114.7 Reference GRCz11 Primary Assembly

Range

40289412..40295255

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021469299.2 → XP_021324974.1 cleavage and polyadenylation specificity factor subunit 4 isoform X1

UniProtKB/TrEMBL

A0A8M9PJH3

Conserved Domains (1) summary

COG5084
Location:38 → 217

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