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Aliases for SF3B6 Gene

Aliases for SF3B6 Gene

  • Splicing Factor 3b Subunit 6 2 3 5
  • Splicing Factor 3b, Subunit 6, 14kDa 2 3 4
  • Spliceosome-Associated Protein, 14-KDa 3 4
  • Pre MRNA Branch Site Protein P14 2 3
  • Pre-MRNA Branch Site Protein P14 3 4
  • SF3b 14 KDa Subunit 3 4
  • SF3B14a 3 4
  • SF3B14 3 4
  • SAP14 3 4
  • Spliceosome-Associated Protein, 14 KDa Subunit 3
  • Splicing Factor 3B, 14 KDa Subunit 3
  • CGI-110 3
  • HSPC175 3
  • SAP14a 3
  • Ht006 3
  • P14 3

External Ids for SF3B6 Gene

Previous GeneCards Identifiers for SF3B6 Gene

  • GC02M024291

Summaries for SF3B6 Gene

Entrez Gene Summary for SF3B6 Gene

  • This gene encodes a 14 kDa protein subunit of the splicing factor 3b complex. Splicing factor 3b associates with both the U2 and U11/U12 small nuclear ribonucleoprotein complexes (U2 snRNP) of spliceosomes. This 14 kDa protein interacts directly with subunit 1 of the splicing factor 3b complex. This 14 kDa protein also interacts directly with the adenosine that carries out the first transesterification step of splicing at the pre-mRNA branch site. [provided by RefSeq, Jul 2008]

GeneCards Summary for SF3B6 Gene

SF3B6 (Splicing Factor 3b Subunit 6) is a Protein Coding gene. Among its related pathways are mRNA Splicing - Major Pathway and Gene Expression. GO annotations related to this gene include nucleic acid binding and nucleotide binding.

UniProtKB/Swiss-Prot for SF3B6 Gene

  • Necessary for the splicing of pre-mRNA. Directly contacts the pre-mRNA branch site adenosine for the first catalytic step of splicing. Enters the spliceosome and associates with the pre-mRNA branch site as part of the 17S U2 or, in the case of the minor spliceosome, as part of the 18S U11/U12 snRNP complex, and thus may facilitate the interaction of these snRNP with the branch sites of U2 and U12 respectively.

Gene Wiki entry for SF3B6 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SF3B6 Gene

Genomics for SF3B6 Gene

Regulatory Elements for SF3B6 Gene

Enhancers for SF3B6 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around SF3B6 on UCSC Golden Path with GeneCards custom track

Promoters for SF3B6 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around SF3B6 on UCSC Golden Path with GeneCards custom track

Genomic Location for SF3B6 Gene

Chromosome:
2
Start:
24,067,584 bp from pter
End:
24,076,444 bp from pter
Size:
8,861 bases
Orientation:
Minus strand

Genomic View for SF3B6 Gene

Genes around SF3B6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SF3B6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SF3B6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SF3B6 Gene

Proteins for SF3B6 Gene

  • Protein details for SF3B6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y3B4-SF3B6_HUMAN
    Recommended name:
    Splicing factor 3B subunit 6
    Protein Accession:
    Q9Y3B4
    Secondary Accessions:
    • Q53TM1

    Protein attributes for SF3B6 Gene

    Size:
    125 amino acids
    Molecular mass:
    14585 Da
    Quaternary structure:
    • Component of splicing factor SF3B complex which is composed of at least eight subunits; SF3B1, SF3B2, SF3B3, SF3B4, SF3B5, SF3B6, PHF5A/SF3B14B, and DDX42/SF3B125. Interacts with SF3B1. Component of the U11/U12 snRNPs that are part of the U12-type spliceosome.

    Three dimensional structures from OCA and Proteopedia for SF3B6 Gene

neXtProt entry for SF3B6 Gene

Proteomics data for SF3B6 Gene at MOPED

Post-translational modifications for SF3B6 Gene

  • Ubiquitination at Lys 7 and Lys 41
  • Modification sites at PhosphoSitePlus

Other Protein References for SF3B6 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SF3B6 Gene

Domains & Families for SF3B6 Gene

Protein Domains for SF3B6 Gene

Suggested Antigen Peptide Sequences for SF3B6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9Y3B4

UniProtKB/Swiss-Prot:

SF3B6_HUMAN :
  • Contains 1 RRM (RNA recognition motif) domain.
  • Belongs to the SF3B6 family.
Domain:
  • Contains 1 RRM (RNA recognition motif) domain.
Family:
  • Belongs to the SF3B6 family.
genes like me logo Genes that share domains with SF3B6: view

No data available for Gene Families for SF3B6 Gene

Function for SF3B6 Gene

Molecular function for SF3B6 Gene

UniProtKB/Swiss-Prot Function:
Necessary for the splicing of pre-mRNA. Directly contacts the pre-mRNA branch site adenosine for the first catalytic step of splicing. Enters the spliceosome and associates with the pre-mRNA branch site as part of the 17S U2 or, in the case of the minor spliceosome, as part of the 18S U11/U12 snRNP complex, and thus may facilitate the interaction of these snRNP with the branch sites of U2 and U12 respectively.

Gene Ontology (GO) - Molecular Function for SF3B6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000166 nucleotide binding IEA --
genes like me logo Genes that share ontologies with SF3B6: view
genes like me logo Genes that share phenotypes with SF3B6: view

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for SF3B6 Gene

Localization for SF3B6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SF3B6 Gene

Gene Ontology (GO) - Cellular Components for SF3B6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm TAS --
GO:0005686 U2 snRNP IBA --
GO:0005689 U12-type spliceosomal complex IDA 15146077
GO:0071013 catalytic step 2 spliceosome IBA --
genes like me logo Genes that share ontologies with SF3B6: view

No data available for Subcellular locations from COMPARTMENTS for SF3B6 Gene

Pathways & Interactions for SF3B6 Gene

genes like me logo Genes that share pathways with SF3B6: view

Pathways by source for SF3B6 Gene

Gene Ontology (GO) - Biological Process for SF3B6 Gene

None

No data available for SIGNOR curated interactions for SF3B6 Gene

Drugs & Compounds for SF3B6 Gene

No Compound Related Data Available

Transcripts for SF3B6 Gene

mRNA/cDNA for SF3B6 Gene

Alternative Splicing Database (ASD) splice patterns (SP) for SF3B6 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b · 2c ^ 3a · 3b ^ 4a · 4b · 4c
SP1: - -
SP2: - - -
SP3: - - - -
SP4: -
SP5:

Relevant External Links for SF3B6 Gene

GeneLoc Exon Structure for
SF3B6
ECgene alternative splicing isoforms for
SF3B6

Expression for SF3B6 Gene

mRNA expression in normal human tissues for SF3B6 Gene

Protein differential expression in normal tissues from HIPED for SF3B6 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (14.0) and Nasal epithelium (11.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for SF3B6 Gene



genes like me logo Genes that share expression patterns with SF3B6: view

Protein tissue co-expression partners for SF3B6 Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for SF3B6 Gene

Orthologs for SF3B6 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SF3B6 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia SF3B14 35
  • 97.6 (n)
  • 100 (a)
SF3B14 36
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SF3B14 35
  • 97.07 (n)
  • 100 (a)
-- 36
  • 100 (a)
OneToOne
mouse
(Mus musculus)
Mammalia 0610009D07Rik 35
  • 92 (n)
  • 100 (a)
Sf3b6 16
0610009D07Rik 36
  • 100 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia SF3B14 35
  • 100 (n)
  • 100 (a)
-- 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia LOC100365504 35
  • 91.47 (n)
  • 100 (a)
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 93 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 100 (a)
OneToOne
chicken
(Gallus gallus)
Aves SF3B14 35
  • 85.6 (n)
  • 100 (a)
-- 36
  • 100 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 100 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sf3b14 35
  • 82.13 (n)
  • 99.2 (a)
Str.5936 35
African clawed frog
(Xenopus laevis)
Amphibia MGC68842 35
zebrafish
(Danio rerio)
Actinopterygii sf3b6 35
  • 81.87 (n)
  • 100 (a)
wufb78f04 35
sf3b14 36
  • 100 (a)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10259 35
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002780 35
  • 66.39 (n)
  • 73.77 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG13298 35
  • 67.83 (n)
  • 77.39 (a)
CG13298 36
  • 74 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea C50D2.5 35
  • 61.87 (n)
  • 68 (a)
C50D2.5 36
  • 62 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G12190 35
  • 57.3 (n)
  • 63.64 (a)
soybean
(Glycine max)
eudicotyledons Gma.8283 35
barley
(Hordeum vulgare)
Liliopsida Hv.3044 35
rice
(Oryza sativa)
Liliopsida Os.5336 35
Os03g0811700 35
  • 61.02 (n)
  • 65.32 (a)
wheat
(Triticum aestivum)
Liliopsida Ta.3276 35
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.5237 35
Species with no ortholog for SF3B6:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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 blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for SF3B6 Gene

ENSEMBL:
Gene Tree for SF3B6 (if available)
TreeFam:
Gene Tree for SF3B6 (if available)

Paralogs for SF3B6 Gene

Pseudogenes.org Pseudogenes for SF3B6 Gene

genes like me logo Genes that share paralogs with SF3B6: view

No data available for Paralogs for SF3B6 Gene

Variants for SF3B6 Gene

Sequence variations from dbSNP and Humsavar for SF3B6 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs736843 -- 24,073,472(+) TATGG(G/T)TAATG intron-variant
rs736844 -- 24,073,096(+) TATTT(C/T)CAGCT intron-variant
rs1971074 -- 24,068,254(+) CACCG(C/T)GCCCG intron-variant
rs3769665 -- 24,073,736(-) ACACT(A/G)TGTTT intron-variant
rs3769666 -- 24,073,563(-) AACAT(C/G)TAATT intron-variant

Variation tolerance for SF3B6 Gene

Residual Variation Intolerance Score: 56.2% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SF3B6 Gene

HapMap Linkage Disequilibrium report
SF3B6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for SF3B6 Gene

Disorders for SF3B6 Gene

Relevant External Links for SF3B6

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SF3B6

No disorders were found for SF3B6 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SF3B6 Gene

Publications for SF3B6 Gene

  1. A novel U2 and U11/U12 snRNP protein that associates with the pre- mRNA branch site. (PMID: 11500380) Will C.L. … Query C.C. (EMBO J. 2001) 2 3 4 23 67
  2. Molecular architecture of the multiprotein splicing factor SF3b. (PMID: 12738865) Golas M.M. … Stark H. (Science 2003) 2 3 23
  3. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3
  4. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein M.Y. … Mann M. (Cell 2015) 3
  5. The central role of EED in the orchestration of polycomb group complexes. (PMID: 24457600) Cao Q. … Chinnaiyan A.M. (Nat Commun 2014) 3

Products for SF3B6 Gene

Sources for SF3B6 Gene

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