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Aliases for SCAF8 Gene

Aliases for SCAF8 Gene

  • SR-Related CTD Associated Factor 8 2 3 5
  • SR-Related And CTD-Associated Factor 8 3 4
  • CDC5L Complex-Associated Protein 7 3 4
  • RNA-Binding Motif Protein 16 3 4
  • RBM16 3 4
  • SR-Like CTD-Associated Factor 8 3
  • RNA Binding Motif Protein 16 2
  • Protein SCAF8 3
  • KIAA1116 4
  • CCAP7 4

External Ids for SCAF8 Gene

Previous HGNC Symbols for SCAF8 Gene

  • RBM16

Previous GeneCards Identifiers for SCAF8 Gene

  • GC06P155055

Summaries for SCAF8 Gene

GeneCards Summary for SCAF8 Gene

SCAF8 (SR-Related CTD Associated Factor 8) is a Protein Coding gene. GO annotations related to this gene include nucleic acid binding and nucleotide binding. An important paralog of this gene is SCAF4.

UniProtKB/Swiss-Prot for SCAF8 Gene

  • May play a role in mRNA processing.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SCAF8 Gene

Genomics for SCAF8 Gene

Regulatory Elements for SCAF8 Gene

Enhancers for SCAF8 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH06F154243 1.5 FANTOM5 Ensembl ENCODE 23.2 -486.2 -486153 7.8 TBP PKNOX1 TBL1XR1 WRNIP1 ZNF133 INSM2 YBX1 BMI1 FEZF1 ZNF2 SCAF8 RPL27AP6 CNKSR3 GC06P154217 IPCEF1
GH06F154457 1.3 Ensembl ENCODE 23.8 -273.9 -273939 4.6 PKNOX1 ZFP64 ARID4B FEZF1 ZNF48 YY1 FOS SP5 MXD4 MIER2 SCAF8 LOC101928868 LOC105378067
GH06F154432 1.5 FANTOM5 Ensembl ENCODE 17 -300.1 -300079 2.1 HDAC1 CBX3 PKNOX1 ATF1 ARNT TBL1XR1 CHAMP1 GATA2 ETV6 CREM SCAF8 IPCEF1 CNKSR3 LOC105378067 LOC101928868
GH06F155448 1.1 FANTOM5 Ensembl ENCODE 18 +716.0 715962 1.3 ZNF791 PKNOX1 PBX2 ETV1 NFE2 SP7 TRIM28 SCAF8 NOX3 GC06P155399
GH06F154612 1.3 Ensembl ENCODE 14.9 -118.8 -118783 3.1 PKNOX1 ATF1 CREB3L1 FEZF1 ZNF2 GLIS2 CBX5 GATA2 FOS KDM4B SCAF8 CNKSR3 RPL31P29 GC06P154648
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SCAF8 on UCSC Golden Path with GeneCards custom track

Promoters for SCAF8 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001231326 675 2801 HDGF PKNOX1 CREB3L1 ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF207 ZNF143

Genomic Location for SCAF8 Gene

Chromosome:
6
Start:
154,733,325 bp from pter
End:
154,834,244 bp from pter
Size:
100,920 bases
Orientation:
Plus strand

Genomic View for SCAF8 Gene

Genes around SCAF8 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SCAF8 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCAF8 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCAF8 Gene

Proteins for SCAF8 Gene

  • Protein details for SCAF8 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9UPN6-SCAF8_HUMAN
    Recommended name:
    Protein SCAF8
    Protein Accession:
    Q9UPN6
    Secondary Accessions:
    • B7Z888
    • Q5TBU6
    • Q6NSK3
    • Q9BQN8
    • Q9BX43

    Protein attributes for SCAF8 Gene

    Size:
    1271 amino acids
    Molecular mass:
    140519 Da
    Quaternary structure:
    • Interacts with POLR2A (via C-terminus). Has much higher affinity for phosphorylated POLR2A. Identified in a complex with CDC5L and other spliceosomal proteins. May associate with the spliceosome.
    SequenceCaution:
    • Sequence=BAA83068.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SCAF8 Gene

    Alternative splice isoforms for SCAF8 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SCAF8 Gene

Post-translational modifications for SCAF8 Gene

  • Ubiquitination at Lys 119
  • Modification sites at PhosphoSitePlus

Other Protein References for SCAF8 Gene

No data available for DME Specific Peptides for SCAF8 Gene

Domains & Families for SCAF8 Gene

Gene Families for SCAF8 Gene

Graphical View of Domain Structure for InterPro Entry

Q9UPN6

UniProtKB/Swiss-Prot:

SCAF8_HUMAN :
  • Contains 1 CID domain.
Domain:
  • Contains 1 CID domain.
  • Contains 1 RRM (RNA recognition motif) domain.
genes like me logo Genes that share domains with SCAF8: view

Function for SCAF8 Gene

Molecular function for SCAF8 Gene

UniProtKB/Swiss-Prot Function:
May play a role in mRNA processing.

Gene Ontology (GO) - Molecular Function for SCAF8 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA --
GO:0005515 protein binding IPI 25416956
GO:0043175 RNA polymerase core enzyme binding IPI 18550522
genes like me logo Genes that share ontologies with SCAF8: view
genes like me logo Genes that share phenotypes with SCAF8: view

Animal Model Products

miRNA for SCAF8 Gene

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SCAF8 Gene

Localization for SCAF8 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SCAF8 Gene

Nucleus. Nucleus matrix. Note=Detected in granular nuclear foci which correspond to sites of active transcription. {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SCAF8 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for SCAF8 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA --
GO:0005681 spliceosomal complex IEA --
GO:0016363 nuclear matrix ISS --
genes like me logo Genes that share ontologies with SCAF8: view

Pathways & Interactions for SCAF8 Gene

SuperPathways for SCAF8 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SCAF8 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IEA --
genes like me logo Genes that share ontologies with SCAF8: view

No data available for Pathways by source and SIGNOR curated interactions for SCAF8 Gene

Transcripts for SCAF8 Gene

Unigene Clusters for SCAF8 Gene

SR-related CTD-associated factor 8:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SCAF8 Gene

No ASD Table

Relevant External Links for SCAF8 Gene

GeneLoc Exon Structure for
SCAF8
ECgene alternative splicing isoforms for
SCAF8

Expression for SCAF8 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SCAF8 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SCAF8 Gene

This gene is overexpressed in Tlymphocyte (27.9) and Peripheral blood mononuclear cells (7.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SCAF8 Gene



Protein tissue co-expression partners for SCAF8 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SCAF8 Gene:

SCAF8

SOURCE GeneReport for Unigene cluster for SCAF8 Gene:

Hs.591329
genes like me logo Genes that share expression patterns with SCAF8: view

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for SCAF8 Gene

Orthologs for SCAF8 Gene

This gene was present in the common ancestor of animals.

Orthologs for SCAF8 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SCAF8 34 35
  • 99.75 (n)
dog
(Canis familiaris)
Mammalia KIAA1116 35
  • 96 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SCAF8 35
  • 94 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SCAF8 34 35
  • 91.9 (n)
mouse
(Mus musculus)
Mammalia Scaf8 34 16 35
  • 88.56 (n)
rat
(Rattus norvegicus)
Mammalia Scaf8 34
  • 88.22 (n)
oppossum
(Monodelphis domestica)
Mammalia SCAF8 35
  • 86 (a)
OneToOne
chicken
(Gallus gallus)
Aves SCAF8 34 35
  • 78.77 (n)
lizard
(Anolis carolinensis)
Reptilia SCAF8 35
  • 75 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia scaf8 34
  • 70.76 (n)
Str.3128 34
zebrafish
(Danio rerio)
Actinopterygii wu:fd99c08 34
  • 63.06 (n)
scaf4b 35
  • 38 (a)
ManyToMany
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.6704 34
fruit fly
(Drosophila melanogaster)
Insecta CG4266 35
  • 25 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea nrd-1 35
  • 23 (a)
OneToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.7297 34
Species where no ortholog for SCAF8 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SCAF8 Gene

ENSEMBL:
Gene Tree for SCAF8 (if available)
TreeFam:
Gene Tree for SCAF8 (if available)

Paralogs for SCAF8 Gene

Paralogs for SCAF8 Gene

(4) SIMAP similar genes for SCAF8 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with SCAF8: view

Variants for SCAF8 Gene

Sequence variations from dbSNP and Humsavar for SCAF8 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs10457905 -- 154,732,986(+) GTTTA(A/C/G)GGCAC upstream-variant-2KB
rs1047393 -- 154,833,861(+) GGAGC(A/C)CAATA utr-variant-3-prime
rs10485353 -- 154,803,481(+) ATAGC(A/T)TTTGT intron-variant
rs10485354 -- 154,828,809(+) AAAAA(A/G)TGAAT intron-variant
rs10609975 -- 154,808,653(+) AGCCT(-/TTCT)GTTTG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SCAF8 Gene

Variant ID Type Subtype PubMed ID
nsv823882 CNV loss 20364138
nsv5551 CNV deletion 18451855
esv3611330 CNV loss 21293372
esv3611329 CNV loss 21293372
esv3611328 CNV loss 21293372
esv3611327 CNV loss 21293372
esv3571484 CNV loss 25503493
esv3540699 CNV deletion 23714750
esv32566 CNV loss 17666407
esv275420 CNV gain+loss 21479260
esv2674803 CNV deletion 23128226
esv23624 CNV loss 19812545
dgv10983n54 CNV loss 21841781
dgv10982n54 CNV loss 21841781
dgv10981n54 CNV loss 21841781
dgv10980n54 CNV loss 21841781

Variation tolerance for SCAF8 Gene

Residual Variation Intolerance Score: 1.89% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.87; 58.97% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SCAF8 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SCAF8

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SCAF8 Gene

Disorders for SCAF8 Gene

Relevant External Links for SCAF8

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SCAF8

No disorders were found for SCAF8 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SCAF8 Gene

Publications for SCAF8 Gene

  1. Prediction of the coding sequences of unidentified human genes. XIV. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10470851) Kikuno R. … Ohara O. (DNA Res. 1999) 2 3 4 64
  2. Snapshots of the RNA processing factor SCAF8 bound to different phosphorylated forms of the carboxyl-terminal domain of RNA polymerase II. (PMID: 18550522) Becker R. … Meinhart A. (J. Biol. Chem. 2008) 3 4 64
  3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen J.V. … Mann M. (Cell 2006) 3 4 64
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  5. The DNA sequence and analysis of human chromosome 6. (PMID: 14574404) Mungall A.J. … Beck S. (Nature 2003) 3 4 64

Products for SCAF8 Gene

Sources for SCAF8 Gene

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