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    Scaf8 SR-related CTD-associated factor 8 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 245926, updated on 27-Nov-2024

    Summary

    Official Symbol
    Scaf8provided by RGD
    Official Full Name
    SR-related CTD-associated factor 8provided by RGD
    Primary source
    RGD:708362
    See related
    EnsemblRapid:ENSRNOG00000016919 AllianceGenome:RGD:708362
    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
    Also known as
    Rbm16
    Summary
    Enables RNA polymerase binding activity and protein domain specific binding activity. Involved in mRNA processing and transcription by RNA polymerase II. Located in nuclear matrix. Orthologous to human SCAF8 (SR-related CTD associated factor 8). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 221.3), Spleen (RPKM 169.3) and 9 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Scaf8 in Genome Data Viewer
    Location:
    1q11
    Exon count:
    28
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (46132972..46321162)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (43727686..43855889)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (44017801..44120619)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120097709 Neighboring gene RNA, U6 small nuclear 859 Neighboring gene TIAM Rac1 associated GEF 2 Neighboring gene transcription factor B1, mitochondrial Neighboring gene claudin 20

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables RNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables RNA polymerase II C-terminal domain phosphoserine binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA polymerase II C-terminal domain phosphoserine binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables RNA polymerase II C-terminal domain phosphoserine binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables RNA polymerase II complex binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables RNA polymerase binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables RNA polymerase core enzyme binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables mRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein domain specific binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of mRNA cleavage factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nuclear matrix IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    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

    Preferred Names
    SR-related and CTD-associated factor 8
    Names
    CTD-binding SR-like protein rA8
    RNA-binding motif protein 16
    SR-like CTD-associated factor 8
    protein SCAF8
    putative RNA-binding protein 16

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001428710.1NP_001415639.1  SR-related and CTD-associated factor 8 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      F1LPT8
    2. NM_001428712.1NP_001415641.1  SR-related and CTD-associated factor 8 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A0A0G2K5M7
    3. NM_139094.2NP_620794.2  SR-related and CTD-associated factor 8 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      F1LPT8

    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_086019.1 Reference GRCr8

      Range
      46132972..46321162
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006227858.4XP_006227920.3  SR-related and CTD-associated factor 8 isoform X8

      UniProtKB/Swiss-Prot
      Q63623
      Conserved Domains (2) summary
      cd17004
      Location:88218
      CID_SCAF8; CID (CTD-Interacting Domain) of SR-related and CTD-associated factor 8
      cd12462
      Location:558636
      RRM_SCAF8; RNA recognition motif (RRM) found in SR-related and CTD-associated factor 8 (SCAF8) and similar proteins
    2. XM_039098275.2XP_038954203.1  SR-related and CTD-associated factor 8 isoform X1

      Related
      ENSRNOP00000073484.3, ENSRNOT00000083425.3
      Conserved Domains (2) summary
      cd17004
      Location:5135
      CID_SCAF8; CID (CTD-Interacting Domain) of SR-related and CTD-associated factor 8
      cd12462
      Location:475553
      RRM_SCAF8; RNA recognition motif (RRM) found in SR-related and CTD-associated factor 8 (SCAF8) and similar proteins
    3. XM_063280845.1XP_063136915.1  SR-related and CTD-associated factor 8 isoform X5

      UniProtKB/TrEMBL
      A0A8I5XWQ5
    4. XM_063280821.1XP_063136891.1  SR-related and CTD-associated factor 8 isoform X1

      UniProtKB/TrEMBL
      F1LPT8
    5. XM_039098351.2XP_038954279.1  SR-related and CTD-associated factor 8 isoform X5

      UniProtKB/Swiss-Prot
      Q63623
      UniProtKB/TrEMBL
      A0A8I5XWQ5
      Related
      ENSRNOP00000078015.1, ENSRNOT00000109313.2
      Conserved Domains (3) summary
      PHA03247
      Location:635977
      PHA03247; large tegument protein UL36; Provisional
      cd17004
      Location:5135
      CID_SCAF8; CID (CTD-Interacting Domain) of SR-related and CTD-associated factor 8
      cd12462
      Location:475553
      RRM_SCAF8; RNA recognition motif (RRM) found in SR-related and CTD-associated factor 8 (SCAF8) and similar proteins
    6. XM_039098309.2XP_038954237.1  SR-related and CTD-associated factor 8 isoform X2

      UniProtKB/Swiss-Prot
      Q63623
      Conserved Domains (2) summary
      cd17004
      Location:5135
      CID_SCAF8; CID (CTD-Interacting Domain) of SR-related and CTD-associated factor 8
      cd12462
      Location:474552
      RRM_SCAF8; RNA recognition motif (RRM) found in SR-related and CTD-associated factor 8 (SCAF8) and similar proteins
    7. XM_063280810.1XP_063136880.1  SR-related and CTD-associated factor 8 isoform X1

      UniProtKB/TrEMBL
      F1LPT8
    8. XM_063280850.1XP_063136920.1  SR-related and CTD-associated factor 8 isoform X6

    9. XM_063280834.1XP_063136904.1  SR-related and CTD-associated factor 8 isoform X4

    10. XM_063280830.1XP_063136900.1  SR-related and CTD-associated factor 8 isoform X3

      Related
      ENSRNOP00000062541.5, ENSRNOT00000065733.5
    11. XM_039098360.2XP_038954288.1  SR-related and CTD-associated factor 8 isoform X7

      UniProtKB/TrEMBL
      A0A8I6A4L7
      Conserved Domains (1) summary
      cd12462
      Location:342420
      RRM_SCAF8; RNA recognition motif (RRM) found in SR-related and CTD-associated factor 8 (SCAF8) and similar proteins

    RNA

    1. XR_010062890.1 RNA Sequence

    2. XR_010062896.1 RNA Sequence

    3. XR_010062898.1 RNA Sequence

    4. XR_010062888.1 RNA Sequence

    5. XR_010062883.1 RNA Sequence

    6. XR_010062884.1 RNA Sequence