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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 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
  • Pre MRNA Branch Site Protein P14 2
  • 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 mRNA Splicing - Minor Pathway. 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 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
GH02F024075 0.2 ENCODE 20.6 -0.5 -532 3.5 HDGF PKNOX1 ARNT CREB3L1 MLX WRNIP1 ZFP64 ARID4B SIN3A DMAP1 FAM228B TP53I3 SF3B6 PFN4 UBXN2A
GH02F024048 1.1 ENCODE 12.1 +26.6 26643 1.6 ELF3 KLF17 ARID4B ZNF48 ZNF2 ZNF121 GLIS2 ZNF366 ZNF391 THAP11 FAM228B SF3B6 MFSD2B TP53I3 UBXN2A ATAD2B PFN4 FKBP1B GC02M024079 PIR43014
GH02F024082 0.6 ENCODE 11.6 -7.5 -7546 3.6 HDGF CREB3L1 MLX ZFP64 ARID4B SIN3A DMAP1 ZNF2 SLC30A9 ZNF207 FAM228B TP53I3 PFN4 SF3B6 UBXN2A FAM228A
GH02F024101 0.3 FANTOM5 11.1 -25.1 -25112 0.2 FAM228B SF3B6 MFSD2B GC02M024111 PIR36243 TP53I3
GH02F024110 0.6 Ensembl ENCODE 11.1 -34.8 -34792 1.3 PKNOX1 MAFG BACH1 YY1 JUND ZNF316 PBX2 HMBOX1 NFE2 ZBTB33 FAM228B PFN4 TP53I3 SF3B6 MFSD2B ATAD2B UBXN2A FAM228A GC02M024111 PIR36243
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

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
ENSR00000299884 44 2801 HDGF PKNOX1 ARNT CREB3L1 MLX WRNIP1 ZFP64 ARID4B SIN3A FEZF1

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

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 --
GO:0003676 nucleic acid binding IEA --
GO:0003723 RNA binding IEA --
GO:0044822 poly(A) RNA binding IDA 22658674
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

Inhibitory RNA Products

Clone Products

Flow Cytometry 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:0005634 nucleus IEA --
GO:0005654 nucleoplasm TAS --
GO:0005684 U2-type spliceosomal complex IBA --
GO:0005686 U2 snRNP IBA --
GO:0005689 U12-type spliceosomal complex IDA 15146077
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

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome TAS --
GO:0001825 blastocyst formation IEA --
GO:0006397 mRNA processing IEA --
GO:0008380 RNA splicing IEA --
genes like me logo Genes that share ontologies with SF3B6: view

No data available for SIGNOR curated interactions for SF3B6 Gene

Transcripts for SF3B6 Gene

mRNA/cDNA for SF3B6 Gene

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

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, MaxQB, and MOPED for SF3B6 Gene



Protein tissue co-expression partners for SF3B6 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SF3B6 Gene:

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

Primer 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
chimpanzee
(Pan troglodytes)
Mammalia SF3B14 34
  • 100 (n)
-- 35
  • 100 (a)
OneToOne
dog
(Canis familiaris)
Mammalia -- 35
  • 100 (a)
OneToOne
SF3B14 34
  • 97.07 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SF3B14 34 35
  • 97.6 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 93 (a)
OneToOne
mouse
(Mus musculus)
Mammalia 0610009D07Rik 34 35
  • 92 (n)
Sf3b6 16
rat
(Rattus norvegicus)
Mammalia LOC100365504 34
  • 91.47 (n)
chicken
(Gallus gallus)
Aves -- 35
  • 100 (a)
OneToOne
SF3B14 34
  • 85.6 (n)
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 100 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sf3b14 34
  • 82.13 (n)
Str.5936 34
African clawed frog
(Xenopus laevis)
Amphibia MGC68842 34
zebrafish
(Danio rerio)
Actinopterygii sf3b14 35
  • 100 (a)
OneToOne
sf3b6 34
  • 81.87 (n)
wufb78f04 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.10259 34
fruit fly
(Drosophila melanogaster)
Insecta CG13298 34 35
  • 67.83 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002780 34
  • 66.39 (n)
worm
(Caenorhabditis elegans)
Secernentea C50D2.5 34 35
  • 61.87 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G12190 34
  • 57.3 (n)
soybean
(Glycine max)
eudicotyledons Gma.8283 34
rice
(Oryza sativa)
Liliopsida Os03g0811700 34
  • 61.02 (n)
Os.5336 34
barley
(Hordeum vulgare)
Liliopsida Hv.3044 34
wheat
(Triticum aestivum)
Liliopsida Ta.3276 34
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.5237 34
Species where no ortholog for SF3B6 was found in the sources mined by GeneCards:
  • 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
rs10177683 -- 24,072,324(+) TACAT(C/G)GGGTG intron-variant
rs10188313 -- 24,067,099(+) AAAAA(A/C)CAATT downstream-variant-500B, utr-variant-3-prime
rs10189013 -- 24,070,597(+) AAGTA(C/T)AAAGt intron-variant
rs10189243 -- 24,070,886(+) TTCTG(C/T)GACAG intron-variant
rs10189443 -- 24,071,021(+) ggagt(C/T)gcact intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SF3B6 Gene

Variant ID Type Subtype PubMed ID
nsv997445 CNV gain 25217958
nsv997725 CNV gain 25217958

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

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SF3B6

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot 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. Molecular architecture of the multiprotein splicing factor SF3b. (PMID: 12738865) Golas M.M. … Stark H. (Science 2003) 2 3 4 22 64
  2. 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 22 64
  3. Crystal structure of a core spliceosomal protein interface. (PMID: 16432215) Schellenberg M.J. … MacMillan A.M. (Proc. Natl. Acad. Sci. U.S.A. 2006) 3 4 64
  4. The human 18S U11/U12 snRNP contains a set of novel proteins not found in the U2-dependent spliceosome. (PMID: 15146077) Will C.L. … Luehrmann R. (RNA 2004) 3 4 64
  5. 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

Products for SF3B6 Gene

Sources for SF3B6 Gene

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