BRAT1 Gene

Aliases
for BRAT1 gene

(According to ¹HGNC, ²Entrez Gene,
³UniProtKB/Swiss-Prot, ⁴UniProtKB/TrEMBL, ⁵OMIM, ⁶GeneLoc, ⁷Ensembl, ⁸DME, ⁹miRBase, ¹⁰fRNAdb, ¹²H-InvDB, ¹³NCBI, ¹⁴NONCODE, and/or ¹⁵RNAdb)
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Summaries
for BRAT1 gene

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Genomic Views
for BRAT1 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:

NC_000007.13  NT_007819.18  NC_018918.2  

SwitchGear Promoter luciferase reporter plasmids (see all 3): BRAT1 promoter sequence

DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat BRAT1

BRAT1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)


GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07M002577:  view genomic region     (about GC identifiers)

Proteins
for BRAT1 gene

(According to ¹UniProtKB, HORDE, ²neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., eBioscience, antibodies-online, and/or GeneTex,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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1 PDB 3D structure from and Proteopedia for BRAT1:

4IFI (3D)    

Explore the universe of human proteins at neXtProt for BRAT1: NX_Q6PJG6

Explore proteomics data for BRAT1 at MOPED

Post-translational modifications: 

BRAT1 Human Recombinant Protein Products:

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	antibodies-online proteins for BRAT1 (2 products)
	antibodies-online peptides for BRAT1

BRAT1 Antibody Products:

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BRAT1 Assay Products:

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	antibodies-online kits for BRAT1 (3 products)

Domains /
Families
for BRAT1 gene

(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GenesLikeMe)
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ProtoNet protein and cluster: Q6PJG6

Find genes that share domains with BRAT1           About GenesLikeMe

Function
for BRAT1 gene

(According to ¹UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or ²DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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     Gene Ontology (GO): 2 molecular function terms:    About this table

genOway: Develop your customized and physiologically relevant rodent model for BRAT1

miRNA Products:		miRTarBase miRNAs that target BRAT1: hsa-mir-27a-3p (MIRT050026), hsa-mir-335-5p (MIRT016937), hsa-mir-27b-3p (MIRT046230), hsa-mir-15b-5p (MIRT046452), hsa-mir-130b-5p (MIRT038295), hsa-mir-16-5p (MIRT051289), hsa-mir-484 (MIRT041857)
		Block miRNA regulation of human, mouse, rat BRAT1 using miScript Target Protectors
		Search for qRT-PCR Assays for microRNAs that regulate BRAT1
		SwitchGear 3'UTR luciferase reporter plasmid: BRAT1 3' UTR sequence

Inhib. RNA Products:		OriGene RNAi products in human, mouse, rat for BRAT1
		Predesigned siRNA for gene silencing in human, mouse, rat BRAT1

Gene Editing Products:

DNA2.0 Custom Protein Engineering Service for BRAT1

Clone Products:		OriGene clones in human, mouse for BRAT1 (see all 6) OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
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		Sino Biological Human cDNA Clone for BRAT1
		DNA2.0 Custom Codon Optimized Gene Synthesis Service for BRAT1
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Cell Line Products:		GenScript Custom overexpressing Cell Line Services for BRAT1
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In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for BRAT1

Localization
for BRAT1 gene

(According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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Gene Ontology (GO): 1 cellular component term:    About this table

Pathways & Interactions
for BRAT1 gene

(SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GenesLikeMe, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene, Sets of similar genes according to GenesLikeMe)
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Gene Ontology (GO): 1 biological process term:    About this table

Drugs & Compounds
for BRAT1 gene

(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, Sets of similar genes according to GenesLikeMe)
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Transcripts
for BRAT1 gene

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 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,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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Expression
for BRAT1 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 GenesLikeMe, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE ¹MOPED, ²PaxDb, and ³MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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BRAT1 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>^2/3
CGAP TAG: TCCTTCTGTG

About this image

Primer Products:		OriGene qPCR primer pairs and template standards for BRAT1 OriGene qSTAR qPCR primer pairs in human, mouse for BRAT1
		Pre-validated RT2 qPCR Primer Assay in human, mouse, rat BRAT1
		QuantiTect SYBR Green Assays in human, mouse, rat BRAT1
		QuantiFast Probe-based Assays in human, mouse, rat BRAT1

In Situ Assay Products:

Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for BRAT1

Orthologs
for BRAT1 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)
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Paralogs
for BRAT1 gene

(Paralogs according to ¹HomoloGene,
²Ensembl, and ³SIMAP, Pseudogenes according to ⁴Pseudogene.org Build 68,Sets of similar genes according to GenesLikeMe)
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Paralogs for BRAT1 gene

3 SIMAP similar genes for BRAT1 using alignment to 2 protein entries:     BRAT1_HUMAN (see all proteins):

FLJ00053    FLJ00283    FLJ00321

Find genes that share paralogs with BRAT1           About GenesLikeMe

Genomic Variants
for BRAT1 gene

(SNPs/Variants according to the ¹NCBI SNP Database, ²Ensembl, ³PupaSUITE, ⁴UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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Selected SNPs for BRAT1 (see all 743)    About this table

Genomic Data					Transcription Related Data				Allele Frequencies
SNP ID	Valid	Clinical significance	Chr 7 pos	Sequence	#	AA Chg	Type	More	#	Allele freq	Pop	Total sample	More
-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd	--	--	--	-1st2nd3rd	--	--	-1st2nd3rd	-1st2nd3rd	-1st2nd3rd
rs1479784141,2	C	untested1	2554279(+)	CCCCAA/C/GGAAGT	2	L	syn1		0	--	--	--	--
rs1458483081,2		--	2550292(+)	AAACTC/GCTGGC	1	--	ds5001		0	--	--	--	--
rs1490161841,2		--	2550301(+)	GCCTTA/GAACAA	1	--	ds5001		0	--	--	--	--
rs1123512571,2	C	--	2550327(+)	CTCCCG/AAAGTG	1	--	ds5001		1		CSA	2
rs1926556411,2		--	2550403(+)	CCGGGC/TGGAGT	1	--	ds5001		0	--	--	--	--
rs1838825351,2		--	2550529(+)	AAAAAA/TATTAG	1	--	ds5001		0	--	--	--	--
rs1893402551,2		--	2550570(+)	AGCTAC/TTCGGG	1	--	ds5001		0	--	--	--	--
rs1420543441,2		--	2550673(+)	GAAACC/TCCATC	1	--	ds5001		0	--	--	--	--
rs1819554591,2		--	2550699(+)	ACAGAC/TAGATA	1	--	ds5001		0	--	--	--	--
rs1859165581,2		--	2550798(+)	TAACTC/GAAAAA	1	--	ut31		0	--	--	--	--

HapMap Linkage Disequilibrium report for BRAT1 (2577444 - 2595392 bp)

Structural Variations
     Database of Genomic Variants (DGV) 9 variations for BRAT1:    About this table    

Variant ID	Type	Subtype	PubMed ID
nsv887298	CNV	Loss	21882294
dgv7117n71	CNV	Loss	21882294
dgv7118n71	CNV	Loss	21882294
nsv887297	CNV	Loss	21882294
nsv830887	CNV	Loss	17160897
dgv7120n71	CNV	Loss	21882294
dgv7116n71	CNV	Loss	21882294
dgv7119n71	CNV	Loss	21882294
nsv823981	CNV	Gain	20364138

Human Gene Mutation Database (HGMD): BRAT1

Site Specific Mutation Identification with PCR Assays

SeqTarget long-range PCR primers for resequencing BRAT1

DNA2.0 Custom Variant and Variant Library Synthesis for BRAT1

Disorders / Diseases
for BRAT1 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, Sets of similar genes according to GenesLikeMe)
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Publications
for BRAT1 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)
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1. ATM activation by ionizing radiation requires BRCA1-associated BAAT1. (PubMed id 16452482)^{1, 2, 3} Aglipay J.A.... Ouchi T. (J. Biol. Chem. 2006)
2. Genetic mapping and exome sequencing identify variants associated with five novel diseases. (PubMed id 22279524)^{1, 2} Puffenberger E.G....Strauss K.A. (PLoS ONE 2012)
3. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PubMed id 16964243)^{1, 2} Beausoleil S.A.... Gygi S.P. (Nat. Biotechnol. 2006)
4. 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. (Genome Res. 2004)
5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)^{1, 2} Ota T.... Sugano S. (Nat. Genet. 2004)
6. VCP phosphorylation-dependent interaction partners prevent apoptosis in Helicobacter pylori-infected gastric epithelial cells. (PubMed id 23383273)¹ Yu C.C....Chow L.P. (PLoS ONE 2013)
7. Structural basis for the BRCA1 BRCT interaction with the proteins ATRIP and BAAT1. (PubMed id 24073851)¹ Liu X. and Ladias J.A. (Biochemistry 2013)
8. Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass. (PubMed id 23000965)¹ Povlsen L.K....Choudhary C. (Nat. Cell Biol. 2012)
9. Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)¹ Udeshi N.D....Carr S.A. (amp 2012)
10. Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population. (PubMed id 23251661)¹ Comuzzie A.G....Butte N.F. (PLoS ONE 2012)

External Searches for BRAT1 gene

Genome Databases showing BRAT1 gene

Other Databases showing BRAT1 gene

Specialized Databases showing BRAT1 gene

Products
for BRAT1 gene

(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, GeneTex, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from genOway)
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