SF3A3 Gene
protein-coding GIFtS: 54
GCID: GC01M038422
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splicing factor 3a, subunit 3, 60kDa(Previous names: splicing factor 3a, subunit 3, 60kD )
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Aliases
for SF3A3 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Splicing Factor 3a, Subunit 3, 60kDa1 2 | | SAP 612 3 | | SAP611 2 3 | | Splicing Factor 3a, Subunit 3, 60kD1 | | SF3a601 2 3 | | Pre-MRNA Splicing Factor SF3a (60kD)2 | | PRP91 2 | | Spliceosome Associated Protein 612 | | PRPF91 2 | | Splicing Factor 3A Subunit 32 | | Spliceosome-Associated Protein 612 3 | | |
Export aliases for SF3A3 gene to outside databasesPrevious GC identifers: GC01P038261 GC01M037458 GC01M037886 GC01M037835 GC01M037826 GC01M038091 GC01M038195 GC01M036540 |
Summaries
for SF3A3 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for SF3A3:
This gene encodes subunit 3 of the splicing factor 3a protein complex. The splicing factor 3a heterotrimer includessubunits 1, 2 and 3 and is necessary for the in vitro conversion of 15S U2 snRNP into an active 17S particle thatperforms pre-mRNA splicing. Subunit 3 interacts with subunit 1 through its amino-terminus while the zinc finger domainof subunit 3 plays a role in its binding to the 15S U2 snRNP. This gene has a pseudogene on chromosome 20. (providedby RefSeq, Jul 2008)
UniProtKB/Swiss-Prot: SF3A3_HUMAN, Q12874Function: Subunit of the splicing factor SF3A required for 'A' complex assembly formed by the stable binding of U2snRNP to the branchpoint sequence (BPS) in pre-mRNA. Sequence independent binding of SF3A/SF3B complex upstream of thebranch site is essential, it may anchor U2 snRNP to the pre-mRNA. May also be involved in the assembly of the 'E'complex
Gene Wiki entry for SF3A3
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Genomic Views
for SF3A3 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000001.10 NC_018912.1 NT_032977.9
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the SF3A3 gene promoter:
E2F-4 Bach1 E2F-3a STAT1 E2F-5 E2F-2 C/EBPalpha E47 E2F E2F-1
Other transcription factors
Search SABiosciences Chromatin IP Primers for SF3A3
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SF3A3 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1p34.3 Ensembl cytogenetic band: 1p34.3 HGNC cytogenetic band: 1p34.3SF3A3 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 1 GeneLoc Exon Structure GeneLoc location for GC01M038422: view genomic region
(about GC identifiers)
Start:
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38,422,647 bp from pter |
End:
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38,456,593 bp from pter |
Size:
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33,947 bases |
Orientation:
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minus strand |
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Proteins
for SF3A3 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: SF3A3_HUMAN, Q12874 (See
protein sequence)Recommended Name: Splicing factor 3A subunit 3 Size: 501 amino acids; 58849 Da
Subunit: Identified in the spliceosome C complex. Component of splicing factor SF3A which is composed of threesubunits; SF3A3/SAP61, SF3A2/SAP62, SF3A1/SAP114. SF3A associates with the splicing factor SF3B and a 12S RNA unit toform the U2 small nuclear ribonucleoproteins complex (U2 snRNP). Interacts with SF3A1, through its N-terminal region
Subcellular location: Nucleus speckle
1 PDB 3D structure from  and Proteopedia  for SF3A3:2DT7 (3D)
Secondary accessions: D3DPT5 Q15460 Q5VT87Explore the universe of human proteins at neXtProt for SF3A3: NX_Q12874
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q12874
SF3A3 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_006793.1
ENSEMBL proteins: ENSP00000362110 ENSP00000392027 Reactome Protein details: Q12874
Human Recombinant Protein Products:
Gene Ontology (GO): 5/6 cellular component terms (GO ID links to tree view) (see all 6): About this table
SF3A3 for ontologies About GeneDecksing
SF3A3 Antibody Products:
Assay Products for SF3A3: |
Protein
Domains /
Families
for SF3A3 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
SF3A3 for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q12874ProtoNet protein and cluster: Q12874 UniProtKB/Swiss-Prot: SF3A3_HUMAN, Q12874Similarity: Belongs to the SF3A3 familySimilarity: Contains 1 matrin-type zinc finger |
Function
for SF3A3 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: SF3A3_HUMAN, Q12874Function: Subunit of the splicing factor SF3A required for 'A' complex assembly formed by the stable binding of U2snRNP to the branchpoint sequence (BPS) in pre-mRNA. Sequence independent binding of SF3A/SF3B complex upstream of thebranch site is essential, it may anchor U2 snRNP to the pre-mRNA. May also be involved in the assembly of the 'E'complex
Clone
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OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SF3A3 (see all 2)
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SF3A3 |
Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view): About this table
SF3A3 for ontologies About GeneDecksing
9 GenomeRNAi human phenotypes for SF3A3:
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Pathways & Interactions
for SF3A3 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Unified GeneCards pathways About this table
See pathways by source
| Super-pathway | contained gene-specific pathways |
|---|
| 1 | mRNA Splicing - Major Pathway | | | 2 | Diurnally regulated genes with circadian orthologs | | | 3 | Generic Transcription Pathway | |
Pathway sources
See GeneCards unified pathways
Show all pathways
2  BioSystems Pathways for SF3A3
5 
Reactome Pathways for SF3A3
1 
Kegg Pathway (Kegg details for SF3A3):
SF3A3 for pathways About GeneDecksing
Interactions:
SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for SF3A3
STRING Interaction
Network Preview (showing 5 interactants - click image to see 25)
5/817 Interacting proteins for SF3A3 (Q128741, 2, 3 ENSP000003621104) via UniProtKB, MINT, STRING, and/or I2D (see all 817)About this table
Gene Ontology (GO): 5/6 biological process terms (GO ID links to tree view) (see all 6): About this table
SF3A3 for ontologies About GeneDecksing
|
Drugs & Compounds
for SF3A3 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for SF3A3
Search CenterWatch for drugs/clinical trials and news about SF3A3
|
Transcripts
for SF3A3 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for SF3A3 gene: NM_006802.2 Unigene Cluster for SF3A3: Splicing factor 3a, subunit 3, 60kDa Hs.77897 [show with all ESTs]Unigene Representative Sequence: AK1284389 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000373019(uc001cci.3 uc010oik.2) ENST00000487062 ENST00000460925
ENST00000489537 ENST00000461869 ENST00000470585 ENST00000488934 ENST00000462258
ENST00000448721
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SF3A3 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SF3A3 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: SF3A3 (NM_006802) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SF3A3 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SF3A3 |
Additional cDNA sequence: AK026887.1 AK128438.1 AK222554.1 AK291181.1 AK292116.1 AK301424.1 BC002395.2 BC011523.1 U08815.1 24/31 DOTS entries (see all 31): DT.87017051 DT.95163258 DT.100671034 DT.91960453 DT.99932270 DT.97869217 DT.121443161 DT.100671022 DT.100641586 DT.121443195 DT.40116561 DT.100671023 DT.100671052 DT.121443156 DT.121443194 DT.92408106 DT.100671039 DT.120737471 DT.95101879 DT.100671032 DT.100671050 DT.95163257 DT.100671030 DT.101971451 24/521 AceView cDNA sequences (see all 521): BE929704 AA054331 AA026213 CR590005 AA302396 CB242446 BE315452 BQ016180 H90672 CA397923 AA300516 BM455074 CB160564 BM921950 BX419664 BE243512 BE396871 BM845155 AL039268 AU130806 CR599719 CB111819 BF797185 BQ049842
GeneLoc Exon Structure
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Expression
for SF3A3 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| SF3A3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: CTGGCAGATT
About this image
See SF3A3 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SF3A3
SOURCE GeneReport for Unigene cluster: Hs.77897
UniProtKB/Swiss-Prot: SF3A3_HUMAN, Q12874Tissue specificity: Ubiquitous
SABiosciences Custom PCR Arrays for SF3A3
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SF3A3
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SF3A3 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SF3A3 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SF3A3 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SF3A3 |
Orthologs
for SF3A3 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of eukaryotes.
Orthologs for SF3A3 gene from 9/35 species (see all 35) About this table
ENSEMBL Gene Tree for SF3A3 (if available)
TreeFam Gene Tree for SF3A3 (if available) |
Paralogs
for SF3A3 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for SF3A3 gene
- SDE22
SF3A3 for paralogs About GeneDecksing
2 Pseudogenes.org Pseudogenes for SF3A3
PGOHUM00000242518 PGOHUM00000247429
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Genomic Variants
for SF3A3 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 1 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for SF3A3 (38422647 - 38456593 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for SF3A3: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SF3A3 |
|
Disorders
/ Diseases
for SF3A3 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
SF3A3 for disorders About GeneDecksing
OMIM gene information: 605596
OMIM disorders: --
3  diseases for SF3A3: About MalaCardsmalaria pancreatic cancer pancreatitis
Export disorders for SF3A3 gene to outside databases
|
Publications
for SF3A3 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for SF3A3 gene, integrated from 9 sources (see all 54):
(articles sorted by number of sources associating them with SF3A3) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Splicing factor SF3a60 is the mammalian homologue of PRP9 of S.cerevisiae: the conserved zinc finger-like motif is functionally exchangeable in vivo. (PubMed id 7816610)1, 2, 3 Kraemer A.... Bilbe G. (1994)
- Specific protein-protein interactions between the essential mammalian spliceosome-associated proteins SAP 61 and SAP 114. (PubMed id 8022796)1, 2, 3 Chiara M.D.... Reed R. (1994)
- The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (2006)
- Immunoaffinity profiling of tyrosine phosphorylation in cancer cells. (PubMed id 15592455)1, 2 Rush J.... Comb M.J. (2005)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis. (PubMed id 11991638)1, 2 Jurica M.S.... Moore M.J. (2002)
- Functional association of U2 snRNP with the ATP-independent spliceosomal complex E. (PubMed id 10882114)1, 2 Das R.... Reed R. (2000)
- Domains in human splicing factors SF3a60 and SF3a66 required for binding to SF3a120, assembly of the 17S U2 snRNP, and prespliceosome formation. (PubMed id 11533230)1, 9 Nesic D. and Kramer A. (2001)
- A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
- Host cell interactome of HIV-1 Rev includes RNA helica ses involved in multiple facets of virus production. (PubMed id 22174317)1 Naji S....Gerace L. (2012)
|
External Searches for SF3A3 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing SF3A3 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing SF3A3 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing SF3A3 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for SF3A3 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for SF3A3 gene:
Search GeneIP for patents involving SF3A3
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for SF3A3 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat SF3A3 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SF3A3 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SF3A3 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SF3A3 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SF3A3 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SF3A3 |
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 | | | SF3A3 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SF3A3 |
|  |  |  | | | | Search ThermoFisher Antibodies for SF3A3 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SF3A3 |
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