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Aliases for SCAF11 Gene

Aliases for SCAF11 Gene

  • SR-Related CTD Associated Factor 11 2 3 5
  • Splicing Factor, Arginine/Serine-Rich 2-Interacting Protein 3 4
  • Serine/Arginine-Rich Splicing Factor 2-Interacting Protein 3 4
  • SR-Related And CTD-Associated Factor 11 3 4
  • Renal Carcinoma Antigen NY-REN-40 3 4
  • Splicing Regulatory Protein 129 3 4
  • CTD-Associated SR Protein 11 3 4
  • SC35-Interacting Protein 1 3 4
  • SRSF2-Interacting Protein 3 4
  • SRRP129 3 4
  • SFRS2IP 3 4
  • SRSF2IP 3 4
  • CASP11 3 4
  • SIP1 3 4
  • Splicing Factor, Arginine/Serine-Rich 2, Interacting Protein 2
  • Serine/Arginine-Rich Splicing Factor 2, Interacting Protein 2
  • SFRS2-Interacting Protein 3
  • Protein SCAF11 3

External Ids for SCAF11 Gene

Previous HGNC Symbols for SCAF11 Gene

  • SFRS2IP
  • SRSF2IP

Previous GeneCards Identifiers for SCAF11 Gene

  • GC12M046313

Summaries for SCAF11 Gene

GeneCards Summary for SCAF11 Gene

SCAF11 (SR-Related CTD Associated Factor 11) is a Protein Coding gene. Among its related pathways are Apoptosis Modulation and Signaling. GO annotations related to this gene include poly(A) RNA binding. An important paralog of this gene is PHRF1.

UniProtKB/Swiss-Prot for SCAF11 Gene

  • Plays a role in pre-mRNA alternative splicing by regulating spliceosome assembly.

Gene Wiki entry for SCAF11 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SCAF11 Gene

Genomics for SCAF11 Gene

Regulatory Elements for SCAF11 Gene

Enhancers for SCAF11 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
GH12F045983 1.1 FANTOM5 ENCODE 11 +4.0 3968 9.8 MLX CREB3L1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 KNOP1P2 RPL13AP21 RACGAP1P SCAF11 LOC102723757 SLC38A4 SLC38A2 GC12P045991 GC12M045894
GH12F046206 1 FANTOM5 Ensembl ENCODE 3.9 -223.9 -223868 19.5 HDGF PKNOX1 ATF1 WRNIP1 SIN3A YBX1 BRCA1 ZNF2 YY1 GATA2 SLC38A1 ENSG00000257261 LINC00938 SLC38A2 ARID2 SCAF11 ENSG00000274591 GC12M046187
GH12F045878 1.3 FANTOM5 Ensembl ENCODE 2.2 +112.8 112840 1.8 FEZF1 ZIC2 ZFHX2 ZNF316 GATA3 CTBP1 FOXK2 SCRT2 NFE2 MAFK ARID2 SLC38A1 SCAF11 KNOP1P2 RN7SL246P
GH12F046242 0.3 FANTOM5 1.5 -250.6 -250636 0.3 SLC38A1 SCAF11 ENSG00000274591 LOC105378248
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around SCAF11 on UCSC Golden Path with GeneCards custom track

Promoters for SCAF11 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000429618 1620 4601 MLX CREB3L1 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC

Genomic Location for SCAF11 Gene

Chromosome:
12
Start:
45,919,131 bp from pter
End:
45,992,120 bp from pter
Size:
72,990 bases
Orientation:
Minus strand

Genomic View for SCAF11 Gene

Genes around SCAF11 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SCAF11 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCAF11 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SCAF11 Gene

Proteins for SCAF11 Gene

  • Protein details for SCAF11 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q99590-SCAFB_HUMAN
    Recommended name:
    Protein SCAF11
    Protein Accession:
    Q99590
    Secondary Accessions:
    • A6NEU9
    • A6NLW5
    • Q8IW59

    Protein attributes for SCAF11 Gene

    Size:
    1463 amino acids
    Molecular mass:
    164652 Da
    Quaternary structure:
    • Interacts with SRSF2/SFRS2, U2AF2 and SNRNP70.
    SequenceCaution:
    • Sequence=AAC39565.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAC39565.1; Type=Frameshift; Positions=62; Evidence={ECO:0000305}; Sequence=AAH40951.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAH40951.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305};

    Alternative splice isoforms for SCAF11 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SCAF11 Gene

Post-translational modifications for SCAF11 Gene

  • Ubiquitination at Lys 120, Lys 129, Lys 165, Lys 285, and Lys 1152
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SCAF11 Gene

Domains & Families for SCAF11 Gene

Gene Families for SCAF11 Gene

Protein Domains for SCAF11 Gene

Suggested Antigen Peptide Sequences for SCAF11 Gene

Graphical View of Domain Structure for InterPro Entry

Q99590

UniProtKB/Swiss-Prot:

SCAFB_HUMAN :
  • Contains 1 RING-type zinc finger.
Similarity:
  • Contains 1 RING-type zinc finger.
genes like me logo Genes that share domains with SCAF11: view

Function for SCAF11 Gene

Molecular function for SCAF11 Gene

UniProtKB/Swiss-Prot Function:
Plays a role in pre-mRNA alternative splicing by regulating spliceosome assembly.

Gene Ontology (GO) - Molecular Function for SCAF11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 9447963
GO:0008270 zinc ion binding IEA --
GO:0044822 poly(A) RNA binding IDA 22658674
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with SCAF11: view
genes like me logo Genes that share phenotypes with SCAF11: view

Animal Model Products

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 SCAF11 Gene

Localization for SCAF11 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SCAF11 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SCAF11 Gene COMPARTMENTS Subcellular localization image for SCAF11 gene
Compartment Confidence
nucleus 5
cytosol 3

Gene Ontology (GO) - Cellular Components for SCAF11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm IDA --
GO:0005730 nucleolus IDA --
genes like me logo Genes that share ontologies with SCAF11: view

Pathways & Interactions for SCAF11 Gene

SuperPathways for SCAF11 Gene

SuperPathway Contained pathways
1 Apoptosis Modulation and Signaling
.41
genes like me logo Genes that share pathways with SCAF11: view

Pathways by source for SCAF11 Gene

1 BioSystems pathway for SCAF11 Gene

Gene Ontology (GO) - Biological Process for SCAF11 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000245 spliceosomal complex assembly IDA 9447963
GO:0000375 RNA splicing, via transesterification reactions IDA 9447963
GO:0006397 mRNA processing TAS 9447963
GO:0008380 RNA splicing IEA,IDA 9447963
genes like me logo Genes that share ontologies with SCAF11: view

No data available for SIGNOR curated interactions for SCAF11 Gene

Transcripts for SCAF11 Gene

Unigene Clusters for SCAF11 Gene

SR-related CTD-associated factor 11:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SCAF11 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15a · 15b ^ 16a · 16b ^ 17a · 17b ^ 18 ^ 19 ^ 20 ^
SP1:
SP2: - - - - -
SP3: - - - -
SP4: - - - -
SP5: - - -
SP6: - -
SP7:
SP8: -
SP9: - -
SP10:

ExUns: 21
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:

Relevant External Links for SCAF11 Gene

GeneLoc Exon Structure for
SCAF11
ECgene alternative splicing isoforms for
SCAF11

Expression for SCAF11 Gene

mRNA expression in normal human tissues for SCAF11 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SCAF11 Gene

This gene is overexpressed in Heart (24.9), Lung (13.6), and Peripheral blood mononuclear cells (11.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SCAF11 Gene



Protein tissue co-expression partners for SCAF11 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SCAF11 Gene:

SCAF11

SOURCE GeneReport for Unigene cluster for SCAF11 Gene:

Hs.210367

mRNA Expression by UniProt/SwissProt for SCAF11 Gene:

Q99590-SCAFB_HUMAN
Tissue specificity: Widely expressed.
genes like me logo Genes that share expression patterns with SCAF11: view

Primer Products

No data available for mRNA differential expression in normal tissues for SCAF11 Gene

Orthologs for SCAF11 Gene

This gene was present in the common ancestor of animals.

Orthologs for SCAF11 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SCAF11 34 35
  • 99.54 (n)
dog
(Canis familiaris)
Mammalia SCAF11 34 35
  • 87.96 (n)
cow
(Bos Taurus)
Mammalia SCAF11 34 35
  • 87.26 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 83 (a)
OneToMany
-- 35
  • 63 (a)
OneToMany
-- 35
  • 56 (a)
OneToMany
mouse
(Mus musculus)
Mammalia Scaf11 34 16 35
  • 78.54 (n)
rat
(Rattus norvegicus)
Mammalia Scaf11 34
  • 78.4 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 61 (a)
OneToMany
-- 35
  • 46 (a)
OneToMany
chicken
(Gallus gallus)
Aves SCAF11 34 35
  • 65.4 (n)
lizard
(Anolis carolinensis)
Reptilia SCAF11 35
  • 44 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.1320 34
zebrafish
(Danio rerio)
Actinopterygii scaf11 35
  • 25 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG2926 35
  • 8 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 15 (a)
OneToMany
Species where no ortholog for SCAF11 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for SCAF11 Gene

ENSEMBL:
Gene Tree for SCAF11 (if available)
TreeFam:
Gene Tree for SCAF11 (if available)

Paralogs for SCAF11 Gene

Paralogs for SCAF11 Gene

(3) SIMAP similar genes for SCAF11 Gene using alignment to 5 proteins:

genes like me logo Genes that share paralogs with SCAF11: view

Variants for SCAF11 Gene

Sequence variations from dbSNP and Humsavar for SCAF11 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs1012642 -- 45,959,496(+) GAAGA(C/T)ACTTA intron-variant
rs1047878 -- 45,921,265(-) atggc(A/T)cacgc intron-variant, utr-variant-3-prime
rs10492249 -- 45,919,033(+) AATGA(C/T)TGGTA downstream-variant-500B
rs10506264 -- 45,957,866(+) CTTCT(C/T)GGCAA intron-variant
rs1062905 -- 45,923,221(-) TTCTA(A/T)TGCAT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SCAF11 Gene

Variant ID Type Subtype PubMed ID
esv2759897 CNV loss 17122850
esv8720 OTHER inversion 19470904
nsv1138129 CNV deletion 24896259
nsv476586 CNV novel sequence insertion 20440878
nsv832397 CNV loss 17160897

Variation tolerance for SCAF11 Gene

Residual Variation Intolerance Score: 25.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.61; 82.68% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SCAF11 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SCAF11

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SCAF11 Gene

Disorders for SCAF11 Gene

Relevant External Links for SCAF11

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SCAF11

No disorders were found for SCAF11 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SCAF11 Gene

Publications for SCAF11 Gene

  1. Sip1, a novel RS domain-containing protein essential for pre-mRNA splicing. (PMID: 9447963) Zhang W.-J. … Wu J.Y. (Mol. Cell. Biol. 1998) 2 3 4 64
  2. A novel SR-related protein specifically interacts with the carboxy- terminal domain (CTD) of RNA polymerase II through a conserved interaction domain. (PMID: 9224939) Tanner S. … Bourquin J.-P. (Biol. Chem. 1997) 2 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. 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 64
  5. Antigens recognized by autologous antibody in patients with renal- cell carcinoma. (PMID: 10508479) Scanlan M.J. … Old L.J. (Int. J. Cancer 1999) 3 4 64

Products for SCAF11 Gene

Sources for SCAF11 Gene

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