Variant report

Variant	rs9366824
Chromosome Location	chr6:33521577-33521578
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10807126	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947409	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11968218	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206050	0.89[CHB][hapmap];0.87[GIH][hapmap]
rs12214883	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs210132	0.83[GIH][hapmap]
rs210157	0.90[ASN][1000 genomes]
rs3748079	0.87[GIH][hapmap]
rs3846855	0.89[CHB][hapmap];0.81[ASN][1000 genomes]
rs5745568	0.94[CHB][hapmap];0.91[CHD][hapmap];0.92[GIH][hapmap];0.81[MEX][hapmap];0.86[ASN][1000 genomes]
rs5745582	0.88[CHB][hapmap];0.91[CHD][hapmap];0.92[GIH][hapmap];0.85[JPT][hapmap];0.85[LWK][hapmap];0.89[MKK][hapmap];1.00[YRI][hapmap];0.90[ASN][1000 genomes]
rs5745587	0.90[ASN][1000 genomes]
rs6914422	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6918046	0.82[EUR][1000 genomes]
rs9296095	0.82[ASW][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];0.92[GIH][hapmap];0.85[JPT][hapmap];0.85[LWK][hapmap];0.85[MEX][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];0.90[ASN][1000 genomes]
rs9357161	0.86[ASN][1000 genomes]
rs9380365	0.94[CHB][hapmap]
rs9380371	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9469485	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2763548	chr6:33496201-33524779	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9366824	BAK1	cis	Whole Blood	GTEx
rs9366824	CDKN1A	cis	parietal	SCAN
rs9366824	BAK1	cis	lymphoblastoid	GTEx

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33516000-33523800	Weak transcription	GM12878-XiMat	blood
2	chr6:33516600-33521800	Weak transcription	Primary T cells from cord blood	blood
3	chr6:33516800-33537600	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr6:33517800-33524800	Weak transcription	Esophagus	oesophagus
5	chr6:33519800-33524800	Weak transcription	Hela-S3	cervix
6	chr6:33521000-33521800	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr6:33521200-33524000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr6:33521200-33524200	Weak transcription	HMEC	breast
9	chr6:33521200-33533800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr6:33521400-33523600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:33521400-33525200	Weak transcription	NHEK	skin

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links