SCAF8 Gene
protein-coding GIFtS: 44
GCID: GC06P155055
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|
SR-related CTD-associated factor 8(Previous name: RNA binding motif protein 16 ) (Previous symbol: RBM16)
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Aliases for SCAF8 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb) About This Section
|
| Aliases |
|---|
| SR-Related CTD-Associated Factor 81 2 | | SR-Related And CTD-Associated Factor 82 3 | | RBM161 2 3 | | Protein SCAF82 | | RNA Binding Motif Protein 161 2 | | Putative RNA-Binding Protein 162 | | KIAA11161 3 | | RNA-Binding Protein 162 | | CDC5L Complex-Associated Protein 72 3 | | SR-Like CTD-Associated Factor 82 | | RNA-Binding Motif Protein 162 3 | | CCAP73 |
Export aliases for SCAF8 gene to outside databases |
Summaries for SCAF8 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
| UniProtKB/Swiss-Prot: SCAF8_HUMAN, Q9UPN6Function: May play a role in mRNA processing
|
Genomic Views for SCAF8 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_000006.11 NC_018917.1 NT_025741.15
Regulatory elements: Search SABiosciences Regulatory transcription factor binding sites for SCAF8 Other transcription factors
Search SABiosciences Chromatin IP Primers for SCAF8
Epigenetics:
|  | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SCAF8 |
Genomic Location: Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 6q25.1-q25.3 Ensembl cytogenetic band: 6q25.2 HGNC cytogenetic band: 6q25.1-q25.3SCAF8 Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different)

GeneLoc information about chromosome 6 GeneLoc Exon Structure GeneLoc location for GC06P155055: view genomic region
(about GC identifiers)
Start:
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155,054,459 bp from pter |
End:
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155,155,194 bp from pter |
Size:
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100,736 bases |
Orientation:
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plus strand |
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Proteins for SCAF8 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: SCAF8_HUMAN, Q9UPN6 (See
protein sequence)Recommended Name: Protein SCAF8 Size: 1271 amino acids; 140519 Da
Subunit: Interacts with POLR2A (via C-terminus). Has much higher affinity for phosphorylated POLR2A. Identified in acomplex with CDC5L and other spliceosomal proteins. May associate with the spliceosome
Subcellular location: Nucleus. Nucleus matrix. Note=Detected in granular nuclear foci which correspond to sites ofactive transcription (By similarity)
Sequence caution: Sequence=BAA83068.2; Type=Erroneous initiation;
6/9 PDB 3D structures from and Proteopedia for SCAF8 (see all 9):2DIW (3D)
  3D9I (3D)
  3D9J (3D)
  3D9K (3D)
  3D9L (3D)
  3D9M (3D)
 
Secondary accessions: Q5TBU6 Q6NSK3 Q9BQN8 Q9BX43Explore the universe of human proteins at neXtProt for SCAF8: NX_Q9UPN6
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9UPN6 SCAF8 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_055707.3 ENSEMBL proteins: ENSP00000356146 ENSP00000356154 ENSP00000413098 Human Recombinant Protein Products:
Gene Ontology (GO): 4 cellular component terms (GO ID links to tree view): About this table
SCAF8 for ontologies About GeneDecksing
SCAF8 Antibody Products: Assay Products for SCAF8: |
Protein
Domains / Families for SCAF8 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
SCAF8 for domains About GeneDecksing
5 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q9UPN6ProtoNet protein and cluster: Q9UPN6 2 Blocks protein families: IPB000504 RNA-binding region RNP-1 (RNA recognition motif) IPB006569 Regulation of nuclear pre-mRNA protein
UniProtKB/Swiss-Prot: SCAF8_HUMAN, Q9UPN6Similarity: Contains 1 CID domainSimilarity: Contains 1 RRM (RNA recognition motif) domain |
Function for SCAF8 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: SCAF8_HUMAN, Q9UPN6Function: May play a role in mRNA processing
Clone Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SCAF8 (see all 3) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SCAF8 OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: SCAF8 (NM_014892) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SCAF8 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SCAF8  |
In Situ Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCAF8 |
Gene Ontology (GO): 5/6 molecular function terms (GO ID links to tree view) (see all 6): About this table
SCAF8 for ontologies About GeneDecksing
1 GenomeRNAi human phenotype for SCAF8:
|
Pathways & Interactions for SCAF8 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
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SCAF8
STRING Interaction
Network Preview (showing 3 interactants - click image to see more details)
 5/528 Interacting proteins for SCAF8 (Q9UPN62, 3 ENSP000003561464) via UniProtKB, MINT, STRING, and/or I2D (see all 528)About this table
Gene Ontology (GO): 3 biological process terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0006366 | transcription from RNA polymerase II promoter |
-- | -- | | GO:0006397 | mRNA processing |
IEA | -- | | GO:0008380 | RNA splicing |
IEA | -- |
SCAF8 for ontologies About GeneDecksing
|
Drugs & Compounds for SCAF8 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 SCAF8 Search CenterWatch for drugs/clinical trials and news about SCAF8 
|
Transcripts for SCAF8 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 SCAF8 gene: NM_014892.3 Unigene Cluster for SCAF8: SR-related CTD-associated factor 8 Hs.591329 [show with all ESTs]Unigene Representative Sequence: NM_0148926 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000367178(uc011efk.2 uc003qqa.3 uc003qpz.3) ENST00000461219 ENST00000464628 ENST00000479234 ENST00000367186(uc011efj.2 uc010kji.3) ENST00000417268
Clone Products: |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SCAF8 (see all 3) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SCAF8 OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: SCAF8 (NM_014892) | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SCAF8 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SCAF8  |
Additional cDNA sequence: AB029039.1 AK001530.1 AK023859.1 AK295651.1 AK302969.1 AK303001.1 AK307815.1 AL833928.1 BC032728.1 BC070071.1 13 DOTS entries: DT.213252 DT.101967195 DT.91645339 DT.92449365 DT.101983395 DT.121368960 DT.121369039 DT.91982659 DT.95157459 DT.100688099 DT.121369095 DT.40286849 DT.86857088 24/214 AceView cDNA sequences (see all 214): AI467985 AB029039 BG259907 AL833928 NM_014892 CA313156 AA890112 AI276470 AA443117 BM460025 BP357758 AI087875 CA337351 BQ268011 AK023859 CB267808 CB242615 BC070071 AW613916 AA743403 BQ440965 BQ774192 BM976977 AA404703 GeneLoc Exon Structure
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Expression for SCAF8 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
| SCAF8 expression in normal human tissues (normalized intensities) See probesets specificity/sensitivity at GeneAnnot About this imageBioGPS CGAP TAG: GTAGGTAAAC
About this image See SCAF8 Protein Expression from SPIRE MOPED and PaxDB Genevestigator expression for SCAF8
SOURCE GeneReport for Unigene cluster: Hs.591329 SABiosciences Custom PCR Arrays for SCAF8
Primer Products: |  | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SCAF8 Browse OriGene validated miRNA SYBR primer pairs
| |  | SABiosciences RT2 qPCR Primer Assay in human, mouse / rat SCAF8 | |  | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SCAF8 | |  | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SCAF8 | In Situ Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCAF8 |
Orthologs for SCAF8 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 animals.
Orthologs for SCAF8 gene from 7/22 species (see all 22) About this table
| Organism |
Taxonomic classification |
Gene |
Description |
Human Similarity |
Orthology Type |
Details |
mouse (Mus musculus) |
Mammalia |
Scaf81 , 5 |
SR-related CTD-associated factor 81, 5 |
88.56(n)1 91.64(a)1 |
  |
17 (1.96 cM)5 1065831 NM_134123.31 NP_598884.21 31149725 |
chicken (Gallus gallus) |
Aves |
SCAF86 |
Uncharacterized protein |
80(a) |
1 ↔ 1 |
3(52225485-52257386) |
lizard (Anolis carolinensis) |
Reptilia |
SCAF86 |
-- |
75(a) |
1 ↔ 1 |
1(214888798-214921536) |
African clawed frog (Xenopus laevis) |
Amphibia |
480146532 |
-- |
84.22(n) |
  |
48014653 |
zebrafish (Danio rerio) |
Actinopterygii |
570596662 |
-- |
76.86(n) |
  |
57059666 |
fruit fly (Drosophila melanogaster) |
Insecta |
CG42666 |
-- |
22(a) |
1 → many |
2R(17049218-17056163) |
worm (Caenorhabditis elegans) |
Secernentea |
nrd-16 |
NRD (yeast Nuclear pre-mRNA Down-regulation) homol... |
21(a) |
possible ortholog |
I(4597891-4602667) |
ENSEMBL Gene Tree for SCAF8 (if available) TreeFam Gene Tree for SCAF8 (if available)  |
Paralogs for SCAF8 gene(Paralogs according to
1HomoloGene, 2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68) About This Section
| Paralogs for SCAF8 gene
- SCAF42
4 SIMAP similar genes for SCAF8 using alignment to 2 protein entries: SCAF8_HUMAN (see all proteins):DKFZp434J2412 RBM16 SFRS15 SCAF4
SCAF8 for paralogs About GeneDecksing
|
Genomic Variants for SCAF8 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 6 pos | Sequence | # | AA Chg | Type | More | # | Allele freq | Pop | Total sample | More |
|---|
HapMap Linkage Disequilibrium report for SCAF8 (155054459 - 155155194 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions) Database of Genomic Variants (DGV) variations for SCAF8: --  | SABiosciences Cancer Mutation PCR Assays |
|  | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SCAF8 |
|
Disorders
/ Diseases for SCAF8 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
| -- |
Publications for SCAF8 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 SCAF8 gene, integrated from 9 sources (see all 23): (articles sorted by number of sources associating them with SCAF8) | |  | Utopia: connect your pdf to the dynamic world of online information |
- Prediction of the coding sequences of unidentified human genes. XIV. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PubMed id 10470851)1, 2, 3 Kikuno R....Ohara O. (1999)
- Snapshots of the RNA processing factor SCAF8 bound to different phosphorylated forms of the carboxyl-terminal domain of RNA polymerase II. (PubMed id 18550522)1, 2 Becker R....Meinhart A. (2008)
- Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PubMed id 17081983)1, 2 Olsen J.V....Mann M. (2006)
- The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)1, 2 Mungall A.J.... Beck S. (2003)
- Functional analysis of the human CDC5L complex and identification of its components by mass spectrometry. (PubMed id 11101529)1, 2 Ajuh P....Lamond A.I. (2000)
- A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
- A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
- Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
- System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)
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External Searches for SCAF8 gene
(in PubMed,
OMIM, and NCBI Bookshelf) About This Section
|
|
Genome Databases showing SCAF8 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing SCAF8 gene
(According to HUGE)
About This Section
| |
Specialized Databases showing SCAF8 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 SCAF8 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for SCAF8 gene: Search GeneIP for patents involving SCAF8
GeneCards and IP: Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products for SCAF8 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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 |  |  |  | |
| | | Search Tocris compounds for SCAF8 |
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 | | SCAF8 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SCAF8 |
|  |  |  | | | Search ThermoFisher Antibodies for SCAF8 |
| | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SCAF8 |
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