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Aliases for SCAF1 Gene

Aliases for SCAF1 Gene

  • SR-Related CTD Associated Factor 1 2 3 5
  • Serine Arginine-Rich Pre-MRNA Splicing Factor SR-A1 3 4
  • SR-Related And CTD-Associated Factor 1 3 4
  • SR-Related-CTD-Associated Factor 3 4
  • SRA1 3 4
  • SCAF 3 4
  • Splicing Factor, Arginine/Serine-Rich 19 3
  • SFRS19 4
  • SR-A1 4

External Ids for SCAF1 Gene

Previous GeneCards Identifiers for SCAF1 Gene

  • GC19P054832
  • GC19P050145
  • GC19P046523

Summaries for SCAF1 Gene

GeneCards Summary for SCAF1 Gene

SCAF1 (SR-Related CTD Associated Factor 1) is a Protein Coding gene. GO annotations related to this gene include RNA binding and protein domain specific binding. An important paralog of this gene is PHRF1.

UniProtKB/Swiss-Prot for SCAF1 Gene

  • May function in pre-mRNA splicing.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SCAF1 Gene

Genomics for SCAF1 Gene

Regulatory Elements for SCAF1 Gene

Enhancers for SCAF1 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
GH19F049741 0.5 Ensembl 11.1 +101.2 101198 0.6 HLF CEBPA ZNF76 CEBPB CEBPG MYC ADM5 CPT1C PRMT1 TSKS RNU6-841P AP2A1 RRAS SCAF1 SLC17A7 LOC105372434
GH19F049637 1.1 FANTOM5 ENCODE 0.8 +0.2 151 6.4 CREB3L1 MLX ZFP64 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC TEAD2 PLEKHA4 RRAS ENSG00000268157 ENSG00000197813 PRMT1 ADM5 CPT1C PRR12 RCN3
GH19F049659 0.5 ENCODE 0.3 +19.4 19405 0.5 ATF1 ZNF76 DEAF1 ZNF2 ZBTB40 ZEB1 ETS1 GLIS2 ZNF143 KLF7 TEAD2 PLEKHA4 ENSG00000268157 RRAS ENSG00000197813 IRF3 BCL2L12 SCAF1
GH19F049655 0.2 ENCODE 0.3 +15.6 15603 1.5 ZNF121 ZNF316 RAD51 ZNF600 MNT EMSY MAFK IRF3 BCL2L12 SCAF1
GH19F049662 0.5 ENCODE 0.3 +24.5 24457 5.4 PKNOX1 CREB3L1 ARID4B SIN3A DMAP1 YY1 ZNF143 SP3 SP5 MXD4 PRR12 TEAD2 PLEKHA4 ENSG00000268157 RPS11 RRAS ENSG00000197813 SNORD35A PIH1D1 IRF3
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around SCAF1 on UCSC Golden Path with GeneCards custom track

Promoters for SCAF1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001419823 -3 5401 CREB3L1 MLX ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3

Genomic Location for SCAF1 Gene

Chromosome:
19
Start:
49,640,503 bp from pter
End:
49,658,649 bp from pter
Size:
18,147 bases
Orientation:
Plus strand

Genomic View for SCAF1 Gene

Genes around SCAF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SCAF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCAF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCAF1 Gene

Proteins for SCAF1 Gene

  • Protein details for SCAF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H7N4-SFR19_HUMAN
    Recommended name:
    Splicing factor, arginine/serine-rich 19
    Protein Accession:
    Q9H7N4
    Secondary Accessions:
    • Q7Z5V7
    • Q8WVA1
    • Q9NR59

    Protein attributes for SCAF1 Gene

    Size:
    1312 amino acids
    Molecular mass:
    139270 Da
    Quaternary structure:
    • Interacts with POLR2A.
    SequenceCaution:
    • Sequence=BAB15734.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

neXtProt entry for SCAF1 Gene

Post-translational modifications for SCAF1 Gene

  • Ubiquitination at Lys 55, Lys 158, and Lys 1123
  • Modification sites at PhosphoSitePlus

Other Protein References for SCAF1 Gene

No data available for DME Specific Peptides for SCAF1 Gene

Domains & Families for SCAF1 Gene

Protein Domains for SCAF1 Gene

ProtoNet:

Suggested Antigen Peptide Sequences for SCAF1 Gene

Graphical View of Domain Structure for InterPro Entry

Q9H7N4

UniProtKB/Swiss-Prot:

SFR19_HUMAN :
  • Belongs to the splicing factor SR family.
Family:
  • Belongs to the splicing factor SR family.
genes like me logo Genes that share domains with SCAF1: view

No data available for Gene Families for SCAF1 Gene

Function for SCAF1 Gene

Molecular function for SCAF1 Gene

UniProtKB/Swiss-Prot Function:
May function in pre-mRNA splicing.
UniProtKB/Swiss-Prot Induction:
Up-regulated by estrogens, androgens and glucocorticoids.

Gene Ontology (GO) - Molecular Function for SCAF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IEA --
GO:0019904 protein domain specific binding IEA --
genes like me logo Genes that share ontologies with SCAF1: view
genes like me logo Genes that share phenotypes with SCAF1: view

Animal Model Products

miRNA for SCAF1 Gene

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SCAF1 Gene

Localization for SCAF1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SCAF1 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SCAF1 Gene COMPARTMENTS Subcellular localization image for SCAF1 gene
Compartment Confidence
nucleus 5
cytosol 3

Gene Ontology (GO) - Cellular Components for SCAF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with SCAF1: view

Pathways & Interactions for SCAF1 Gene

SuperPathways for SCAF1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SCAF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006366 transcription from RNA polymerase II promoter IEA --
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IEA --
genes like me logo Genes that share ontologies with SCAF1: view

No data available for Pathways by source and SIGNOR curated interactions for SCAF1 Gene

Transcripts for SCAF1 Gene

Unigene Clusters for SCAF1 Gene

SR-related CTD-associated factor 1:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SCAF1 Gene

No ASD Table

Relevant External Links for SCAF1 Gene

GeneLoc Exon Structure for
SCAF1
ECgene alternative splicing isoforms for
SCAF1

Expression for SCAF1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SCAF1 Gene

Protein differential expression in normal tissues from HIPED for SCAF1 Gene

This gene is overexpressed in Liver, secretome (12.9), Cerebrospinal fluid (11.2), and Peripheral blood mononuclear cells (10.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SCAF1 Gene



Protein tissue co-expression partners for SCAF1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SCAF1 Gene:

SCAF1

SOURCE GeneReport for Unigene cluster for SCAF1 Gene:

Hs.103521

mRNA Expression by UniProt/SwissProt for SCAF1 Gene:

Q9H7N4-SFR19_HUMAN
Tissue specificity: Ubiquitous. Highly expressed in fetal brain and liver, poorly expressed in salivary gland, heart, skin and ovary. Expressed in colorectal carcinomas and ovarian cancers. Overexpressed in colorectal carcinomas as compared to normal colonic mucosa.
genes like me logo Genes that share expression patterns with SCAF1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for SCAF1 Gene

Orthologs for SCAF1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SCAF1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SCAF1 34 35
  • 96.78 (n)
dog
(Canis familiaris)
Mammalia SCAF1 34 35
  • 89.8 (n)
cow
(Bos Taurus)
Mammalia SCAF1 34 35
  • 89.26 (n)
mouse
(Mus musculus)
Mammalia Scaf1 35
  • 78 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SCAF1 35
  • 38 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SCAF1 35
  • 40 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii scaf1 35
  • 21 (a)
OneToOne
Dr.19086 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10928 34
fruit fly
(Drosophila melanogaster)
Insecta CG2926 35
  • 8 (a)
OneToMany
corn
(Zea mays)
Liliopsida Zm.10149 34
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 8 (a)
OneToMany
Species where no ortholog for SCAF1 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rat (Rattus norvegicus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SCAF1 Gene

ENSEMBL:
Gene Tree for SCAF1 (if available)
TreeFam:
Gene Tree for SCAF1 (if available)

Paralogs for SCAF1 Gene

Paralogs for SCAF1 Gene

genes like me logo Genes that share paralogs with SCAF1: view

Variants for SCAF1 Gene

Sequence variations from dbSNP and Humsavar for SCAF1 Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type
rs10401743 -- 49,653,639(+) CCACG(C/T)TGCCC reference, synonymous-codon
rs10415600 -- 49,655,656(+) CCACC(A/G)TGCCC intron-variant
rs10416712 -- 49,656,157(+) GACTC(A/G)GACGG intron-variant
rs10423279 -- 49,641,429(+) ctcct(A/G)cctca intron-variant, upstream-variant-2KB
rs10423475 -- 49,641,419(+) tcaag(C/T)gattc intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for SCAF1 Gene

Variant ID Type Subtype PubMed ID
nsv1160655 CNV deletion 26073780
nsv469715 CNV gain+loss 16826518
nsv470150 CNV gain 18288195
nsv579908 CNV loss 21841781
nsv579909 CNV loss 21841781
nsv817854 CNV gain 17921354
nsv828578 CNV loss 20364138
nsv833864 CNV gain 17160897
nsv833865 CNV gain+loss 17160897
nsv953600 CNV deletion 24416366
nsv9739 CNV gain+loss 18304495

Variation tolerance for SCAF1 Gene

Residual Variation Intolerance Score: 42.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.03; 68.58% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SCAF1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SCAF1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SCAF1 Gene

Disorders for SCAF1 Gene

Relevant External Links for SCAF1

Genetic Association Database (GAD)
SCAF1
Human Genome Epidemiology (HuGE) Navigator
SCAF1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SCAF1

No disorders were found for SCAF1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SCAF1 Gene

Publications for SCAF1 Gene

  1. Cloning of a gene (SR-A1), encoding for a new member of the human Ser/Arg-rich family of pre-mRNA splicing factors: overexpression in aggressive ovarian cancer. (PMID: 11461075) Scorilas A. … Diamandis E.P. (Br. J. Cancer 2001) 2 3 4 22 64
  2. Expression analysis and prognostic significance of the SRA1 gene, in ovarian cancer. (PMID: 16631123) Leoutsakou T. … Scorilas A. (Biochem. Biophys. Res. Commun. 2006) 3 4 22 64
  3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64
  4. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey S.D. … Anand S. (Diabetes Care 2010) 3 46 64
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64

Products for SCAF1 Gene

Sources for SCAF1 Gene

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