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CPSF2 cleavage and polyadenylation specific factor 2 [ Homo sapiens (human) ]

Gene ID: 53981, updated on 7-Jan-2024

Summary

Official Symbol
CPSF2provided by HGNC
Official Full Name
cleavage and polyadenylation specific factor 2provided by HGNC
Primary source
HGNC:HGNC:2325
See related
Ensembl:ENSG00000165934 MIM:606028; AllianceGenome:HGNC:2325
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
CPSF100
Summary
Predicted to enable RNA binding activity. Involved in mRNA 3'-end processing by stem-loop binding activity and cleavage. Located in membrane. Part of mRNA cleavage and polyadenylation specificity factor complex. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis (RPKM 13.0), thyroid (RPKM 12.9) and 25 other tissues See more
Orthologs
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Genomic context

See CPSF2 in Genome Data Viewer
Location:
14q32.12
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (92121969..92172145)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (86351804..86401990)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (92588313..92638489)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124903363 Neighboring gene MPRA-validated peak2235 silencer Neighboring gene MPRA-validated peak2236 silencer Neighboring gene ataxin 3 repeat instability region Neighboring gene ataxin 3 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6031 Neighboring gene NANOG hESC enhancer GRCh37_chr14:92566141-92566677 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:92572215-92573149 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr14:92574354-92575164 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:92586481-92587470 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8927 Neighboring gene NADH:ubiquinone oxidoreductase subunit B1 Neighboring gene ReSE screen-validated silencer GRCh37_chr14:92624044-92624245 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:92673090-92673696 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:92673697-92674303 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr14:92719434-92719934 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr14:92719935-92720435 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8928 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8929 Neighboring gene RNA, U6 small nuclear 366, pseudogene Neighboring gene uncharacterized LOC105370627

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

EBI GWAS Catalog

Description
Genome-wide association scan for survival on dialysis in African-Americans with type 2 diabetes.
EBI GWAS Catalog
Many sequence variants affecting diversity of adult human height.
EBI GWAS Catalog
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
EBI GWAS Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Rev rev HIV-1 Rev interacting protein, cleavage and polyadenylation specific factor 2 (CPSF2), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells. The interaction of Rev with CPSF2 is increased by RRE PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • KIAA1367

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in mRNA 3'-end processing by stem-loop binding and cleavage IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in mRNA 3'-end processing by stem-loop binding and cleavage IDA
Inferred from Direct Assay
more info
PubMed 
involved_in mRNA polyadenylation IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
located_in glutamatergic synapse IEA
Inferred from Electronic Annotation
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 IDA
Inferred from Direct Assay
more info
PubMed 
located_in membrane HDA PubMed 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
located_in postsynapse IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
cleavage and polyadenylation specificity factor subunit 2
Names
CPSF 100 kDa subunit
CPSF 100kDa subunit
cleavage and polyadenylation specific factor 2, 100kDa
cleavage and polyadenylation specificity factor 100 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)

  1. NM_001322270.2NP_001309199.1  cleavage and polyadenylation specificity factor subunit 2 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL121773
    UniProtKB/TrEMBL
    B3KN45
    Conserved Domains (4) summary
    smart01027
    Location:243368
    Beta-Casp; Beta-Casp domain
    cd16293
    Location:7204
    CPSF2-like_MBL-fold; cleavage and polyadenylation specificity factor (CPSF) subunit 2 and related proteins; MBL-fold metallo-hydrolase domain
    pfam13299
    Location:557728
    CPSF100_C; Cleavage and polyadenylation factor 2 C-terminal
    pfam07521
    Location:480540
    RMMBL; Zn-dependent metallo-hydrolase RNA specificity domain
  2. NM_001322271.2NP_001309200.1  cleavage and polyadenylation specificity factor subunit 2 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AL121773
    UniProtKB/TrEMBL
    B3KN45
    Conserved Domains (4) summary
    smart01027
    Location:90215
    Beta-Casp; Beta-Casp domain
    pfam07521
    Location:376438
    RMMBL; Zn-dependent metallo-hydrolase RNA specificity domain
    pfam13299
    Location:455626
    CPSF100_C; Cleavage and polyadenylation factor 2 C-terminal
    cl23716
    Location:151
    metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain
  3. NM_001322272.2NP_001309201.1  cleavage and polyadenylation specificity factor subunit 2 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL121773
    Consensus CDS
    CCDS9902.1
    UniProtKB/Swiss-Prot
    B3KME1, Q6NSJ1, Q9H3W7, Q9P2I0
    UniProtKB/TrEMBL
    B3KN45
    Conserved Domains (4) summary
    smart01027
    Location:243368
    Beta-Casp; Beta-Casp domain
    cd16293
    Location:7204
    CPSF2-like_MBL-fold; cleavage and polyadenylation specificity factor (CPSF) subunit 2 and related proteins; MBL-fold metallo-hydrolase domain
    pfam07521
    Location:529591
    RMMBL; Zn-dependent metallo-hydrolase RNA specificity domain
    pfam13299
    Location:608779
    CPSF100_C; Cleavage and polyadenylation factor 2 C-terminal
  4. NM_017437.3NP_059133.1  cleavage and polyadenylation specificity factor subunit 2 isoform 1

    See identical proteins and their annotated locations for NP_059133.1

    Status: VALIDATED

    Source sequence(s)
    AB037788, AL121773, BC060854, BC070095, DB081880
    Consensus CDS
    CCDS9902.1
    UniProtKB/Swiss-Prot
    B3KME1, Q6NSJ1, Q9H3W7, Q9P2I0
    UniProtKB/TrEMBL
    B3KN45
    Related
    ENSP00000298875.4, ENST00000298875.9
    Conserved Domains (4) summary
    smart01027
    Location:243368
    Beta-Casp; Beta-Casp domain
    cd16293
    Location:7204
    CPSF2-like_MBL-fold; cleavage and polyadenylation specificity factor (CPSF) subunit 2 and related proteins; MBL-fold metallo-hydrolase domain
    pfam07521
    Location:529591
    RMMBL; Zn-dependent metallo-hydrolase RNA specificity domain
    pfam13299
    Location:608779
    CPSF100_C; Cleavage and polyadenylation factor 2 C-terminal

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    92121969..92172145
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    86351804..86401990
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)