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SCAF8 SR-related CTD associated factor 8 [ Homo sapiens (human) ]

Gene ID: 22828, updated on 1-Jun-2020

Summary

Official Symbol
SCAF8provided by HGNC
Official Full Name
SR-related CTD associated factor 8provided by HGNC
Primary source
HGNC:HGNC:20959
See related
Ensembl:ENSG00000213079 MIM:616024
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
RBM16
Expression
Ubiquitous expression in testis (RPKM 16.9), bone marrow (RPKM 14.1) and 25 other tissues See more
Orthologs

Genomic context

See SCAF8 in Genome Data Viewer
Location:
6q25.2
Exon count:
22
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (154733378..154834244)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (155054512..155282708)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene ribosomal protein L31 pseudogene 29 Neighboring gene stathmin 2 pseudogene Neighboring gene RNA, U6 small nuclear 824, pseudogene Neighboring gene microRNA 1273c Neighboring gene lysophosphatidylcholine acyltransferase 3 pseudogene

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Potential readthrough

Included gene: TIAM2

Homology

Clone Names

  • KIAA1116, KIAA2016

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA polymerase II C-terminal domain phosphoserine binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA polymerase II complex binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA polymerase core enzyme binding IPI
Inferred from Physical Interaction
more info
PubMed 
mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA cleavage factor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear matrix ISS
Inferred from Sequence or Structural Similarity
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
SR-related and CTD-associated factor 8
Names
CDC5L complex-associated protein 7
RNA-binding motif protein 16
SR-like CTD-associated factor 8
protein SCAF8

NCBI Reference Sequences (RefSeq)

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_001286188.1NP_001273117.1  SR-related and CTD-associated factor 8 isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (a).
    Source sequence(s)
    AK295651, BC070071, BX090356
    Consensus CDS
    CCDS75541.1
    UniProtKB/Swiss-Prot
    Q9UPN6
    UniProtKB/TrEMBL
    A0A0A0MT33, B7Z3A4
    Related
    ENSP00000413098.2, ENST00000417268.3
    Conserved Domains (3) summary
    COG0724
    Location:551630
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd03562
    Location:82203
    CID; CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA ...
    cd12462
    Location:553631
    RRM_SCAF8; RNA recognition motif in SR-related and CTD-associated factor 8 (SCAF8) and similar proteins
  2. NM_001286189.1NP_001273118.1  SR-related and CTD-associated factor 8 isoform b

    See identical proteins and their annotated locations for NP_001273118.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses two alternate splice sites that result in the loss of an in-frame segment in the 5' coding region, and it also includes an additional in-frame exon in the 5' coding region, compared to variant 1. The encoded isoform (b) is shorter than isoform a.
    Source sequence(s)
    AK303001, BC070071, BX090356
    Consensus CDS
    CCDS69226.1
    UniProtKB/Swiss-Prot
    Q9UPN6
    Related
    ENSP00000356154.4, ENST00000367186.7
    Conserved Domains (3) summary
    COG0724
    Location:539618
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd03562
    Location:74191
    CID; CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA ...
    cd12462
    Location:541619
    RRM_SCAF8; RNA recognition motif in SR-related and CTD-associated factor 8 (SCAF8) and similar proteins
  3. NM_001286194.1NP_001273123.1  SR-related and CTD-associated factor 8 isoform c

    See identical proteins and their annotated locations for NP_001273123.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses two alternate splice sites that result in the loss of an in-frame segment in the 5' coding region, compared to variant 1. The encoded isoform (c) is shorter than isoform a.
    Source sequence(s)
    AK295651, AK302969, BC070071, BX090356
    UniProtKB/Swiss-Prot
    Q9UPN6
    UniProtKB/TrEMBL
    B7Z3A4, B7Z876
    Conserved Domains (3) summary
    COG0724
    Location:518597
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd03562
    Location:49170
    CID; CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA ...
    cd12462
    Location:520598
    RRM_SCAF8; RNA recognition motif in SR-related and CTD-associated factor 8 (SCAF8) and similar proteins
  4. NM_001286199.1NP_001273128.1  SR-related and CTD-associated factor 8 isoform d

    See identical proteins and their annotated locations for NP_001273128.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) contains an alternate 5' exon and it thus differs in its 5' UTR and initiates translation at an downstream in-frame start codon, compared to variant 1. The encoded isoform (d) is shorter at the N-terminus, compared to isoform a. Both variants 4 and 5 encode isoform d.
    Source sequence(s)
    AK295651, BC070071, BX090356
    Consensus CDS
    CCDS5247.1
    UniProtKB/Swiss-Prot
    Q9UPN6
    UniProtKB/TrEMBL
    B7Z3A4
    Conserved Domains (3) summary
    COG0724
    Location:473552
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd03562
    Location:4125
    CID; CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA ...
    cd12462
    Location:475553
    RRM_SCAF8; RNA recognition motif in SR-related and CTD-associated factor 8 (SCAF8) and similar proteins
  5. NM_014892.5NP_055707.3  SR-related and CTD-associated factor 8 isoform d

    See identical proteins and their annotated locations for NP_055707.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains an alternate 5' exon and it thus differs in its 5' UTR and initiates translation at an downstream in-frame start codon, compared to variant 1. The encoded isoform (d) is shorter at the N-terminus, compared to isoform a. Both variants 4 and 5 encode isoform d.
    Source sequence(s)
    AB029039, AK295651, BX090356, DA219101
    Consensus CDS
    CCDS5247.1
    UniProtKB/Swiss-Prot
    Q9UPN6
    UniProtKB/TrEMBL
    B7Z3A4
    Related
    ENSP00000356146.3, ENST00000367178.7
    Conserved Domains (3) summary
    COG0724
    Location:473552
    RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
    cd03562
    Location:4125
    CID; CID (CTD-Interacting Domain) domain family; CID is present in several RNA-processing factors such as Pcf11 and Nrd1. Pcf11 is a conserved and essential subunit of the yeast cleavage factor IA, which is required for polyadenylation-dependent 3'-RNA ...
    cd12462
    Location:475553
    RRM_SCAF8; RNA recognition motif in SR-related and CTD-associated factor 8 (SCAF8) and similar proteins

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p13 Primary Assembly

    Range
    154733378..154834244
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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