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CPSF7 cleavage and polyadenylation specific factor 7 [ Homo sapiens (human) ]

Gene ID: 79869, updated on 4-Feb-2024

Summary

Official Symbol
CPSF7provided by HGNC
Official Full Name
cleavage and polyadenylation specific factor 7provided by HGNC
Primary source
HGNC:HGNC:30098
See related
Ensembl:ENSG00000149532 AllianceGenome:HGNC:30098
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
CFIm59
Summary
Cleavage factor Im (CFIm) is one of six factors necessary for correct cleavage and polyadenylation of pre-mRNAs. CFIm is composed of three different subunits of 25, 59, and 68 kDa, and it functions as a heterotetramer, with a dimer of the 25 kDa subunit binding to two of the 59 or 68 kDa subunits. The protein encoded by this gene represents the 59 kDa subunit, which can interact with the splicing factor U2 snRNP Auxiliary Factor (U2AF) 65 to link the splicing and polyadenylation complexes. [provided by RefSeq, Oct 2016]
Expression
Ubiquitous expression in ovary (RPKM 25.0), testis (RPKM 24.0) and 25 other tissues See more
Orthologs
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Genomic context

See CPSF7 in Genome Data Viewer
Location:
11q12.2
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (61402729..61429975, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (61391627..61418874, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (61170201..61197447, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:61129243-61129964 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4797 Neighboring gene transmembrane protein 138 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3391 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:61159824-61160785 Neighboring gene transmembrane protein 216 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:61196662-61197310 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:61197385-61197720 Neighboring gene succinate dehydrogenase complex assembly factor 2 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:61213814-61214561 Neighboring gene RNA, 7SL, cytoplasmic 23, pseudogene Neighboring gene ReSE screen-validated silencer GRCh37_chr11:61225919-61226100 Neighboring gene Sharpr-MPRA regulatory region 8840 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:61253575-61254394 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:61255818-61256485 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:61256486-61257152 Neighboring gene stabilizer of axonemal microtubules 4

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

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify 59kDa cleavage and polyadenylation specific factor 7 (CPSF7), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify 59kDa cleavage and polyadenylation specific factor 7 (CPSF7), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Nef nef Tandem affinity purification and mass spectrometry analysis identify 59kDa cleavage and polyadenylation specific factor 7 (CPSF7), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify 59kDa cleavage and polyadenylation specific factor 7 (CPSF7), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Rev rev HIV-1 Rev interacting protein, cleavage and polyadenylation specific factor 7 (CPSF7), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa. The interaction of Rev with CPSF7 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

  • MGC9315, FLJ12529, FLJ39024

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding HDA PubMed 
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 

General protein information

Preferred Names
cleavage and polyadenylation specificity factor subunit 7
Names
CPSF 59 kDa subunit
cleavage and polyadenylation specificity factor 59 kDa subunit
cleavage factor Im complex 59 kDa subunit
pre-mRNA cleavage factor I, 59 kDa subunit
pre-mRNA cleavage factor Im 59 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.

Genomic

  1. NG_051815.1 RefSeqGene

    Range
    5018..32264
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001136040.4NP_001129512.1  cleavage and polyadenylation specificity factor subunit 7 isoform 2

    See identical proteins and their annotated locations for NP_001129512.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) has an alternate 5' exon, which results in a downstream AUG start codon, as compared to variant 1. The resulting isoform (2) has a shorter N-terminus, as compared to isoform 1.
    Source sequence(s)
    AP003108
    Consensus CDS
    CCDS44619.1
    UniProtKB/Swiss-Prot
    B3KU04, C9K0Q4, Q7Z3H9, Q8N684, Q9H025, Q9H9V1
    UniProtKB/TrEMBL
    B4DGF8
    Related
    ENSP00000378352.4, ENST00000394888.8
    Conserved Domains (2) summary
    COG0724
    Location:50231
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12644
    Location:81170
    RRM_CFIm59; RNA recognition motif (RRM) found in pre-mRNA cleavage factor Im 59 kDa subunit (CFIm59 or CPSF7) and similar proteins
  2. NM_001142565.3NP_001136037.1  cleavage and polyadenylation specificity factor subunit 7 isoform 3

    See identical proteins and their annotated locations for NP_001136037.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) has an alternate 5' exon, which results in a downstream AUG start codon, and lacks an in-frame coding segment, as compared to variant 1. The resulting isoform (3) has a shorter N-terminus and lacks an internal segment, as compared to isoform 1.
    Source sequence(s)
    AP003108
    Consensus CDS
    CCDS44620.1
    UniProtKB/TrEMBL
    B4DGF8
    Related
    ENSP00000397203.3, ENST00000439958.8
    Conserved Domains (1) summary
    cd12644
    Location:81170
    RRM_CFIm59; RNA recognition motif (RRM) found in pre-mRNA cleavage factor Im 59 kDa subunit (CFIm59 or CPSF7) and similar proteins
  3. NM_024811.4NP_079087.3  cleavage and polyadenylation specificity factor subunit 7 isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) is the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AP003108
    Consensus CDS
    CCDS8006.2
    UniProtKB/TrEMBL
    B4DGF8
    Related
    ENSP00000345412.4, ENST00000340437.8
    Conserved Domains (1) summary
    cd12644
    Location:124213
    RRM_CFIm59; RNA recognition motif of pre-mRNA cleavage factor Im 59 kDa subunit (CFIm59 or CPSF7) and similar proteins

RNA

  1. NR_165413.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP003108
  2. NR_165414.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP003108
  3. NR_165415.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP003108
  4. NR_165416.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP003108
  5. NR_165417.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP003108
  6. NR_165418.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP003108
  7. NR_165419.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP003108
  8. NR_165420.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AP003108

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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    61402729..61429975 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047427623.1XP_047283579.1  cleavage and polyadenylation specificity factor subunit 7 isoform X8

    UniProtKB/TrEMBL
    F5H669
    Related
    ENSP00000437860.1, ENST00000477890.6
  2. XM_047427622.1XP_047283578.1  cleavage and polyadenylation specificity factor subunit 7 isoform X7

    UniProtKB/TrEMBL
    F5H669
  3. XM_047427624.1XP_047283580.1  cleavage and polyadenylation specificity factor subunit 7 isoform X8

    UniProtKB/TrEMBL
    F5H669
  4. XM_011545259.3XP_011543561.1  cleavage and polyadenylation specificity factor subunit 7 isoform X4

    See identical proteins and their annotated locations for XP_011543561.1

    UniProtKB/TrEMBL
    B4DGF8
    Conserved Domains (1) summary
    cd12644
    Location:81170
    RRM_CFIm59; RNA recognition motif (RRM) found in pre-mRNA cleavage factor Im 59 kDa subunit (CFIm59 or CPSF7) and similar proteins
  5. XM_011545258.3XP_011543560.1  cleavage and polyadenylation specificity factor subunit 7 isoform X3

    See identical proteins and their annotated locations for XP_011543560.1

    UniProtKB/Swiss-Prot
    B3KU04, C9K0Q4, Q7Z3H9, Q8N684, Q9H025, Q9H9V1
    UniProtKB/TrEMBL
    B4DGF8
    Conserved Domains (2) summary
    COG0724
    Location:50231
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12644
    Location:81170
    RRM_CFIm59; RNA recognition motif (RRM) found in pre-mRNA cleavage factor Im 59 kDa subunit (CFIm59 or CPSF7) and similar proteins
  6. XM_047427620.1XP_047283576.1  cleavage and polyadenylation specificity factor subunit 7 isoform X8

    UniProtKB/TrEMBL
    F5H669
  7. XM_047427618.1XP_047283574.1  cleavage and polyadenylation specificity factor subunit 7 isoform X4

    UniProtKB/TrEMBL
    B4DGF8
  8. XM_047427619.1XP_047283575.1  cleavage and polyadenylation specificity factor subunit 7 isoform X7

    UniProtKB/TrEMBL
    F5H669
  9. XM_005274299.5XP_005274356.1  cleavage and polyadenylation specificity factor subunit 7 isoform X3

    See identical proteins and their annotated locations for XP_005274356.1

    UniProtKB/Swiss-Prot
    B3KU04, C9K0Q4, Q7Z3H9, Q8N684, Q9H025, Q9H9V1
    UniProtKB/TrEMBL
    B4DGF8
    Conserved Domains (2) summary
    COG0724
    Location:50231
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12644
    Location:81170
    RRM_CFIm59; RNA recognition motif (RRM) found in pre-mRNA cleavage factor Im 59 kDa subunit (CFIm59 or CPSF7) and similar proteins
  10. XM_017018345.2XP_016873834.1  cleavage and polyadenylation specificity factor subunit 7 isoform X6

    UniProtKB/TrEMBL
    F5H669
  11. XM_005274298.5XP_005274355.1  cleavage and polyadenylation specificity factor subunit 7 isoform X2

    UniProtKB/TrEMBL
    B4DGF8
    Conserved Domains (1) summary
    cd12644
    Location:124213
    RRM_CFIm59; RNA recognition motif of pre-mRNA cleavage factor Im 59 kDa subunit (CFIm59 or CPSF7) and similar proteins
  12. XM_011545257.3XP_011543559.1  cleavage and polyadenylation specificity factor subunit 7 isoform X5

    UniProtKB/TrEMBL
    F5H669
    Conserved Domains (1) summary
    cd12644
    Location:124213
    RRM_CFIm59; RNA recognition motif of pre-mRNA cleavage factor Im 59 kDa subunit (CFIm59 or CPSF7) and similar proteins
  13. XM_047427625.1XP_047283581.1  cleavage and polyadenylation specificity factor subunit 7 isoform X9

    UniProtKB/TrEMBL
    B4DGF8
  14. XM_047427617.1XP_047283573.1  cleavage and polyadenylation specificity factor subunit 7 isoform X1

    UniProtKB/TrEMBL
    B4DGF8

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    61391627..61418874 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054370010.1XP_054225985.1  cleavage and polyadenylation specificity factor subunit 7 isoform X8

    UniProtKB/TrEMBL
    F5H669
  2. XM_054370008.1XP_054225983.1  cleavage and polyadenylation specificity factor subunit 7 isoform X7

    UniProtKB/TrEMBL
    F5H669
  3. XM_054370004.1XP_054225979.1  cleavage and polyadenylation specificity factor subunit 7 isoform X4

    UniProtKB/TrEMBL
    B4DGF8
  4. XM_054370007.1XP_054225982.1  cleavage and polyadenylation specificity factor subunit 7 isoform X6

    UniProtKB/TrEMBL
    F5H669
  5. XM_054370001.1XP_054225976.1  cleavage and polyadenylation specificity factor subunit 7 isoform X2

    UniProtKB/TrEMBL
    B4DGF8
  6. XM_054370006.1XP_054225981.1  cleavage and polyadenylation specificity factor subunit 7 isoform X5

    UniProtKB/TrEMBL
    F5H669
  7. XM_054370002.1XP_054225977.1  cleavage and polyadenylation specificity factor subunit 7 isoform X3

    UniProtKB/Swiss-Prot
    B3KU04, C9K0Q4, Q7Z3H9, Q8N684, Q9H025, Q9H9V1
    UniProtKB/TrEMBL
    B4DGF8
  8. XM_054370011.1XP_054225986.1  cleavage and polyadenylation specificity factor subunit 7 isoform X8

    UniProtKB/TrEMBL
    F5H669
  9. XM_054370009.1XP_054225984.1  cleavage and polyadenylation specificity factor subunit 7 isoform X7

    UniProtKB/TrEMBL
    F5H669
  10. XM_054370012.1XP_054225987.1  cleavage and polyadenylation specificity factor subunit 7 isoform X8

    UniProtKB/TrEMBL
    F5H669
  11. XM_054370005.1XP_054225980.1  cleavage and polyadenylation specificity factor subunit 7 isoform X4

    UniProtKB/TrEMBL
    B4DGF8
  12. XM_054370003.1XP_054225978.1  cleavage and polyadenylation specificity factor subunit 7 isoform X3

    UniProtKB/Swiss-Prot
    B3KU04, C9K0Q4, Q7Z3H9, Q8N684, Q9H025, Q9H9V1
    UniProtKB/TrEMBL
    B4DGF8
  13. XM_054370013.1XP_054225988.1  cleavage and polyadenylation specificity factor subunit 7 isoform X9

    UniProtKB/TrEMBL
    B4DGF8
  14. XM_054370000.1XP_054225975.1  cleavage and polyadenylation specificity factor subunit 7 isoform X1

    UniProtKB/TrEMBL
    B4DGF8