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Aliases for SCAF4 Gene

Aliases for SCAF4 Gene

  • SR-Related CTD-Associated Factor 4 2 3
  • Splicing Factor, Arginine/Serine-Rich 15 2 3
  • SR-Related And CTD-Associated Factor 4 3 4
  • CTD-Binding SR-Like Protein RA4 3 4
  • SFRS15 3 4
  • Splicing Factor Serine Alanine 15 3
  • Pre-MRNA Splicing SR Protein RA4 3
  • SR-Like CTD-Associated Factor 4 3
  • KIAA1172 4
  • SRA4 3

External Ids for SCAF4 Gene

Previous Symbols for SCAF4 Gene

  • SFRS15

Summaries for SCAF4 Gene

Entrez Gene Summary for SCAF4 Gene

  • This gene likely encodes a member of the arginine/serine-rich splicing factor family. A similar protein in Rat appears to bind the large subunit of RNA polymerase II and provide a link between transcription and pre-mRNA splicing. Alternatively spliced transcript variants have been described. [provided by RefSeq, Feb 2009]

GeneCards Summary for SCAF4 Gene

SCAF4 (SR-Related CTD-Associated Factor 4) is a Protein Coding gene. Diseases associated with SCAF4 include hay-wells syndrome and wells syndrome. GO annotations related to this gene include RNA binding and nucleotide binding. An important paralog of this gene is SCAF8.

UniProtKB/Swiss-Prot for SCAF4 Gene

  • May act to physically and functionally link transcription and pre-mRNA processing.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SCAF4 Gene

Genomics for SCAF4 Gene

Genomic Location for SCAF4 Gene

Start:
31,671,000 bp from pter
End:
31,732,118 bp from pter
Size:
61,119 bases
Orientation:
Minus strand

Genomic View for SCAF4 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SCAF4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCAF4 Gene

No data available for Regulatory Elements for SCAF4 Gene

Proteins for SCAF4 Gene

  • Protein details for SCAF4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95104-SFR15_HUMAN
    Recommended name:
    Splicing factor, arginine/serine-rich 15
    Protein Accession:
    O95104
    Secondary Accessions:
    • C9JLZ0
    • Q0P5W8
    • Q6P1M5
    • Q8N3I8
    • Q9UFM1
    • Q9ULP8

    Protein attributes for SCAF4 Gene

    Size:
    1147 amino acids
    Molecular mass:
    125869 Da
    Quaternary structure:
    • Interacts with the repetitive C-terminal domain (CTD) of RNA polymerase II.
    SequenceCaution:
    • Sequence=AAD09327.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for SCAF4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SCAF4 Gene

Proteomics data for SCAF4 Gene at MOPED

Post-translational modifications for SCAF4 Gene

  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys119 and Lys583

Other Protein References for SCAF4 Gene

No data available for DME Specific Peptides for SCAF4 Gene

Domains for SCAF4 Gene

Gene Families for SCAF4 Gene

HGNC:
  • RBM :RNA binding motif (RRM) containing

UniProtKB/Swiss-Prot:

SFR15_HUMAN
Domain:
  • Contains 1 CID domain.:
    • O95104
  • Contains 1 RRM (RNA recognition motif) domain.:
    • O95104
Family:
  • Belongs to the splicing factor SR family.:
    • O95104
genes like me logo Genes that share domains with SCAF4: view

Function for SCAF4 Gene

Molecular function for SCAF4 Gene

UniProtKB/Swiss-Prot Function: May act to physically and functionally link transcription and pre-mRNA processing.

Gene Ontology (GO) - Molecular Function for SCAF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
GO:0003676 nucleic acid binding --
GO:0044822 poly(A) RNA binding IDA 22681889
genes like me logo Genes that share ontologies with SCAF4: view

Phenotypes for SCAF4 Gene

GenomeRNAi human phenotypes for SCAF4:
genes like me logo Genes that share phenotypes with SCAF4: view

miRNA for SCAF4 Gene

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for SCAF4 Gene

Localization for SCAF4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SCAF4 Gene

Gene Ontology (GO) - Cellular Components for SCAF4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus --
GO:0005654 nucleoplasm IDA --
genes like me logo Genes that share ontologies with SCAF4: view

Pathways for SCAF4 Gene

SuperPathways for SCAF4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SCAF4 Gene

None

No data available for Pathways by source for SCAF4 Gene

Transcripts for SCAF4 Gene

Unigene Clusters for SCAF4 Gene

SR-related CTD-associated factor 4:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SCAF4 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b · 6c ^ 7a · 7b · 7c ^ 8a · 8b ^ 9a · 9b ^ 10 ^ 11 ^ 12a · 12b · 12c · 12d ^ 13 ^ 14 ^ 15a · 15b · 15c ^
SP1:
SP2: -
SP3: -
SP4: - - -
SP5: -
SP6:
SP7: -
SP8: -
SP9: -
SP10:
SP11:
SP12:
SP13:

ExUns: 16a · 16b ^ 17 ^ 18 ^ 19a · 19b · 19c ^ 20a · 20b · 20c
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11: -
SP12: - -
SP13:

Relevant External Links for SCAF4 Gene

GeneLoc Exon Structure for
SCAF4
ECgene alternative splicing isoforms for
SCAF4

Expression for SCAF4 Gene

mRNA expression in normal human tissues for SCAF4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SCAF4 Gene

SOURCE GeneReport for Unigene cluster for SCAF4 Gene Hs.17255

genes like me logo Genes that share expressions with SCAF4: view

Orthologs for SCAF4 Gene

This gene was present in the common ancestor of animals.

Orthologs for SCAF4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SCAF4 36
  • 99.85 (n)
  • 100 (a)
SCAF4 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SCAF4 36
  • 90.51 (n)
  • 93.08 (a)
SCAF4 37
  • 92 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SCAF4 36
  • 92.24 (n)
  • 94.58 (a)
SCAF4 37
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Scaf4 36
  • 88.3 (n)
  • 89.61 (a)
Scaf4 16
Scaf4 37
  • 83 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SCAF4 37
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SCAF4 37
  • 80 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Scaf4 36
  • 83.63 (n)
  • 84.52 (a)
chicken
(Gallus gallus)
Aves SCAF4 37
  • 81 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SCAF4 37
  • 68 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia scaf4 36
  • 71.13 (n)
  • 72.47 (a)
zebrafish
(Danio rerio)
Actinopterygii scaf4a 37
  • 49 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG4266 37
  • 26 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea nrd-1 37
  • 27 (a)
OneToMany
Species with no ortholog for SCAF4:
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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 SCAF4 Gene

ENSEMBL:
Gene Tree for SCAF4 (if available)
TreeFam:
Gene Tree for SCAF4 (if available)

Paralogs for SCAF4 Gene

Paralogs for SCAF4 Gene

Selected SIMAP similar genes for SCAF4 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with SCAF4: view

Variants for SCAF4 Gene

Sequence variations from dbSNP and Humsavar for SCAF4 Gene

SNP ID Clin Chr 21 pos Sequence Context AA Info Type MAF
rs1544 -- 31,713,272(+) ATAAC(A/G)GTAAG intron-variant
rs183258 -- 31,731,623(-) TGCTG(C/T)GGGAG intron-variant
rs202441 -- 31,678,406(+) tgcac(C/G)agccc intron-variant
rs202442 -- 31,684,475(+) AAACT(C/T)CAGCC intron-variant
rs202443 -- 31,686,364(-) GCTGT(A/G)TTGCT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SCAF4 Gene

Variant ID Type Subtype PubMed ID
nsv519899 CNV Gain 19592680
nsv834079 CNV Loss 17160897
esv270716 CNV Insertion 20981092
esv273551 CNV Insertion 20981092
esv992169 CNV Gain 20482838
nsv820180 CNV Gain 19587683
nsv510792 CNV Loss 20534489
esv2520415 CNV Deletion 19546169

Relevant External Links for SCAF4 Gene

HapMap Linkage Disequilibrium report
SCAF4

Disorders for SCAF4 Gene

genes like me logo Genes that share disorders with SCAF4: view

No data available for UniProtKB/Swiss-Prot for SCAF4 Gene

Publications for SCAF4 Gene

  1. Characterization of cDNA clones selected by the GeneMark analysis from size-fractionated cDNA libraries from human brain. (PMID: 10574461) Hirosawa M. … Ohara O. (DNA Res. 1999) 2 3 4
  2. The DNA sequence of human chromosome 21. (PMID: 10830953) Hattori M. … Yaspo M.-L. (Nature 2000) 3 4
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  4. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen J.V. … Mann M. (Cell 2006) 3 4
  5. Multiple superoxide dismutase 1/splicing factor serine alanine 15 variants are associated with the development and progression of diabetic nephropathy: the Diabetes Control and Complications Trial/Epidemiology of Diabetes Interventions and Complications Genetics study. (PMID: 17914031) Al-Kateb H. … Paterson A.D. (Diabetes 2008) 3

Products for SCAF4 Gene

Sources for SCAF4 Gene

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