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Cstf2 cleavage stimulation factor subunit 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 683927, updated on 4-Jan-2025

Summary

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Official Symbol
Cstf2provided by RGD
Official Full Name
cleavage stimulation factor subunit 2provided by RGD
Primary source
RGD:1596566
See related
EnsemblRapid:ENSRNOG00000048025 AllianceGenome:RGD:1596566
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 mRNA binding activity. Involved in cellular response to nerve growth factor stimulus. Predicted to be located in cleavage body. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Human ortholog(s) of this gene implicated in non-syndromic X-linked intellectual disability. Orthologous to human CSTF2 (cleavage stimulation factor subunit 2). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Brain (RPKM 130.1), Thymus (RPKM 116.3) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Cstf2 in Genome Data Viewer
Location:
Xq32
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (101546809..101572760)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (97253559..97279476)
106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (104882726..104909746)

Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene sushi-repeat-containing protein, X-linked 2 Neighboring gene synaptotagmin-like 4 Neighboring gene 60S ribosomal protein L36a-like Neighboring gene NADPH oxidase 1 Neighboring gene XK related, X-linked Neighboring gene ARF like GTPase 13A

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Polyadenylation site-specific differences in the activity of the neuronal βCstF-64 protein in PC-12 cells. Shankarling GS, et al. Gene, 2013 Oct 25. PMID 23948079, Free PMC Article
  2. Association of human DEAD box protein DDX1 with a cleavage stimulation factor involved in 3'-end processing of pre-MRNA. Bléoo S, et al. Mol Biol Cell, 2001 Oct. PMID 11598190, Free PMC Article
  3. The human 64-kDa polyadenylylation factor contains a ribonucleoprotein-type RNA binding domain and unusual auxiliary motifs. Takagaki Y, et al. Proc Natl Acad Sci U S A, 1992 Feb 15. PMID 1741396, Free PMC Article
  4. CKIalpha is associated with and phosphorylates star-PAP and is also required for expression of select star-PAP target messenger RNAs. Gonzales ML, et al. J Biol Chem, 2008 May 2. PMID 18305108, Free PMC Article
  5. The poly A polymerase Star-PAP controls 3'-end cleavage by promoting CPSF interaction and specificity toward the pre-mRNA. Laishram RS, et al. EMBO J, 2010 Dec 15. PMID 21102410, Free PMC Article

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Clone Names

  • MGC188397

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables RNA binding ISO
Inferred from Sequence Orthology
more info
  
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in cellular response to nerve growth factor stimulus IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in mRNA 3'-end processing ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in cleavage body 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 ISO
Inferred from Sequence Orthology
more info
  
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
cleavage stimulation factor subunit 2
Names
cleavage stimulation factor, 3' pre-RNA subunit 2

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_001131014.2 → NP_001124486.1  cleavage stimulation factor subunit 2 isoform 1

    See identical proteins and their annotated locations for NP_001124486.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000021
    UniProtKB/TrEMBL
    A0A0G2K6F9, B4F7F1, M0RAG5
    Related
    ENSRNOP00000082910.2, ENSRNOT00000098089.2
    Conserved Domains (4) summary
    COG0724
    Location:16 → 104
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd12671
    Location:18 → 92
    RRM_CSTF2_CSTF2T; RNA recognition motif in cleavage stimulation factor subunit 2 (CSTF2), cleavage stimulation factor subunit 2 tau variant (CSTF2T) and similar proteins
    pfam14304
    Location:531 → 571
    CSTF_C; Transcription termination and cleavage factor C-terminal
    pfam14327
    Location:113 → 191
    CSTF2_hinge; Hinge domain of cleavage stimulation factor subunit 2

  2. NM_001434384.1 → NP_001421313.1  cleavage stimulation factor subunit 2 isoform 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000021

  3. NM_001434385.1 → NP_001421314.1  cleavage stimulation factor subunit 2 isoform 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000021
    UniProtKB/TrEMBL
    A0A8J8XR33

  4. NM_001434386.1 → NP_001421315.1  cleavage stimulation factor subunit 2 isoform 4

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000021
    UniProtKB/TrEMBL
    A0A0G2JWP1, A0A0G2K6F9

  5. NM_001434387.1 → NP_001421316.1  cleavage stimulation factor subunit 2 isoform 5

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000021
    UniProtKB/TrEMBL
    A0A0G2K6F9, A0A8I5ZY65

  6. NM_001434388.1 → NP_001421317.1  cleavage stimulation factor subunit 2 isoform 6

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000021

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

  1. NC_086039.1 Reference GRCr8

    Range
    101546809..101572760
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039100066.2 → XP_038955994.1  cleavage stimulation factor subunit 2 isoform X4

    Related
    ENSRNOP00000069956.3, ENSRNOT00000079572.3
    Conserved Domains (4) summary
    PRK07764
    Location:241 → 459
    PRK07764; DNA polymerase III subunits gamma and tau; Validated
    pfam14304
    Location:551 → 591
    CSTF_C; Transcription termination and cleavage factor C-terminal
    pfam14327
    Location:112 → 191
    CSTF2_hinge; Hinge domain of cleavage stimulation factor subunit 2
    cd12671
    Location:10 → 94
    RRM_CSTF2_CSTF2T; RNA recognition motif (RRM) found in cleavage stimulation factor subunit 2 (CSTF2), cleavage stimulation factor subunit 2 tau variant (CSTF2T) and similar proteins

  2. XM_039100067.2 → XP_038955995.1  cleavage stimulation factor subunit 2 isoform X5

    Conserved Domains (4) summary
    TIGR01645
    Location:18 → 447
    half-pint; poly-U binding splicing factor, half-pint family
    pfam14304
    Location:525 → 565
    CSTF_C; Transcription termination and cleavage factor C-terminal
    pfam14327
    Location:112 → 191
    CSTF2_hinge; Hinge domain of cleavage stimulation factor subunit 2
    cd12671
    Location:10 → 94
    RRM_CSTF2_CSTF2T; RNA recognition motif (RRM) found in cleavage stimulation factor subunit 2 (CSTF2), cleavage stimulation factor subunit 2 tau variant (CSTF2T) and similar proteins

  3. XM_039100068.2 → XP_038955996.1  cleavage stimulation factor subunit 2 isoform X6

    Conserved Domains (4) summary
    PRK14718
    Location:369 → 426
    PRK14718; ribonuclease III; Provisional
    pfam14304
    Location:505 → 545
    CSTF_C; Transcription termination and cleavage factor C-terminal
    pfam14327
    Location:112 → 191
    CSTF2_hinge; Hinge domain of cleavage stimulation factor subunit 2
    cd12671
    Location:10 → 94
    RRM_CSTF2_CSTF2T; RNA recognition motif (RRM) found in cleavage stimulation factor subunit 2 (CSTF2), cleavage stimulation factor subunit 2 tau variant (CSTF2T) and similar proteins

  4. XM_039100072.2 → XP_038956000.1  cleavage stimulation factor subunit 2 isoform X9

    Conserved Domains (2) summary
    pfam14327
    Location:112 → 191
    CSTF2_hinge; Hinge domain of cleavage stimulation factor subunit 2
    cd12671
    Location:10 → 94
    RRM_CSTF2_CSTF2T; RNA recognition motif (RRM) found in cleavage stimulation factor subunit 2 (CSTF2), cleavage stimulation factor subunit 2 tau variant (CSTF2T) and similar proteins

  5. XM_039100073.2 → XP_038956001.1  cleavage stimulation factor subunit 2 isoform X9

    Conserved Domains (2) summary
    pfam14327
    Location:112 → 191
    CSTF2_hinge; Hinge domain of cleavage stimulation factor subunit 2
    cd12671
    Location:10 → 94
    RRM_CSTF2_CSTF2T; RNA recognition motif (RRM) found in cleavage stimulation factor subunit 2 (CSTF2), cleavage stimulation factor subunit 2 tau variant (CSTF2T) and similar proteins

  6. XM_039100064.2 → XP_038955992.1  cleavage stimulation factor subunit 2 isoform X2

    Conserved Domains (4) summary
    PRK14718
    Location:423 → 480
    PRK14718; ribonuclease III; Provisional
    pfam14304
    Location:559 → 599
    CSTF_C; Transcription termination and cleavage factor C-terminal
    pfam14327
    Location:112 → 191
    CSTF2_hinge; Hinge domain of cleavage stimulation factor subunit 2
    cd12671
    Location:10 → 94
    RRM_CSTF2_CSTF2T; RNA recognition motif (RRM) found in cleavage stimulation factor subunit 2 (CSTF2), cleavage stimulation factor subunit 2 tau variant (CSTF2T) and similar proteins

  7. XM_039100063.2 → XP_038955991.1  cleavage stimulation factor subunit 2 isoform X1

    Related
    ENSRNOP00000066513.3, ENSRNOT00000074330.4
    Conserved Domains (4) summary
    PRK14718
    Location:444 → 501
    PRK14718; ribonuclease III; Provisional
    pfam14304
    Location:580 → 620
    CSTF_C; Transcription termination and cleavage factor C-terminal
    pfam14327
    Location:112 → 191
    CSTF2_hinge; Hinge domain of cleavage stimulation factor subunit 2
    cd12671
    Location:10 → 94
    RRM_CSTF2_CSTF2T; RNA recognition motif (RRM) found in cleavage stimulation factor subunit 2 (CSTF2), cleavage stimulation factor subunit 2 tau variant (CSTF2T) and similar proteins

  8. XM_039100065.2 → XP_038955993.1  cleavage stimulation factor subunit 2 isoform X3

    Conserved Domains (4) summary
    PRK14718
    Location:418 → 475
    PRK14718; ribonuclease III; Provisional
    pfam14304
    Location:554 → 594
    CSTF_C; Transcription termination and cleavage factor C-terminal
    pfam14327
    Location:112 → 191
    CSTF2_hinge; Hinge domain of cleavage stimulation factor subunit 2
    cd12671
    Location:10 → 94
    RRM_CSTF2_CSTF2T; RNA recognition motif (RRM) found in cleavage stimulation factor subunit 2 (CSTF2), cleavage stimulation factor subunit 2 tau variant (CSTF2T) and similar proteins

  9. XM_039100069.2 → XP_038955997.1  cleavage stimulation factor subunit 2 isoform X7

    Conserved Domains (3) summary
    PRK14718
    Location:305 → 362
    PRK14718; ribonuclease III; Provisional
    pfam14304
    Location:441 → 481
    CSTF_C; Transcription termination and cleavage factor C-terminal
    pfam14327
    Location:1 → 52
    CSTF2_hinge; Hinge domain of cleavage stimulation factor subunit 2

  10. XM_039100070.2 → XP_038955998.1  cleavage stimulation factor subunit 2 isoform X8

    Conserved Domains (2) summary
    PRK14718
    Location:211 → 268
    PRK14718; ribonuclease III; Provisional
    pfam14304
    Location:347 → 387
    CSTF_C; Transcription termination and cleavage factor C-terminal

  11. XM_063280303.1 → XP_063136373.1  cleavage stimulation factor subunit 2 isoform X10

RNA

  1. XR_005498066.2 RNA Sequence

    Related
    ENSRNOT00000082983.3

  2. XR_005498067.2 RNA Sequence

  3. XR_005498069.2 RNA Sequence

  4. XR_005498068.2 RNA Sequence

  5. XR_010061250.1 RNA Sequence

  6. XR_010061248.1 RNA Sequence

  7. XR_005498063.2 RNA Sequence

  8. XR_005498064.2 RNA Sequence

  9. XR_010061249.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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