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

    Gene ID: 683927, updated on 9-Dec-2024

    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, Dec 2024]
    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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