Variant report

Variant	rs6486322
Chromosome Location	chr11:16943920-16943921
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:16940350..16941917-chr11:16941999..16944749,2	MCF-7	breast:
2	chr11:16943395..16946127-chr11:17034525..17036594,2	MCF-7	breast:
3	chr11:16932846..16935000-chr11:16942811..16944331,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166689	Chromatin interaction
ENSG00000184669	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10832700	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11024083	1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs11824348	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12418493	1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs12708338	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs12785711	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12787236	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12793275	0.88[ASN][1000 genomes]
rs12795133	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12802357	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12806040	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs34441025	0.88[ASN][1000 genomes]
rs34670733	1.00[ASN][1000 genomes]
rs34760218	1.00[ASN][1000 genomes]
rs35677666	1.00[ASN][1000 genomes]
rs35865759	0.88[ASN][1000 genomes]
rs6486323	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6486324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6486325	1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs7123174	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs71484734	0.81[ASN][1000 genomes]
rs71484736	1.00[ASN][1000 genomes]
rs7394448	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7394466	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7394865	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7395923	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7396550	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7926072	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7931313	0.88[ASN][1000 genomes]
rs7933299	1.00[JPT][hapmap]
rs7943517	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7944146	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7947201	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[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	nsv832077	chr11:16834545-17059176	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16927800-16944400	Weak transcription	A549	lung
2	chr11:16931400-16944200	Weak transcription	Esophagus	oesophagus
3	chr11:16936800-16944400	Weak transcription	Right Atrium	heart
4	chr11:16936800-16944400	Weak transcription	Right Ventricle	heart
5	chr11:16939200-16945000	Enhancers	Stomach Mucosa	stomach
6	chr11:16939200-16945400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr11:16939400-16944800	Enhancers	Rectal Mucosa Donor 31	rectum
8	chr11:16940000-16944400	Weak transcription	Gastric	stomach
9	chr11:16940800-16944400	Weak transcription	Pancreas	Pancrea
10	chr11:16940800-16945400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr11:16941000-16944400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr11:16941000-16945000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr11:16941000-16945400	Weak transcription	NHEK	skin
14	chr11:16941200-16944000	Weak transcription	Placenta	Placenta
15	chr11:16941400-16944200	Enhancers	Fetal Intestine Small	intestine
16	chr11:16941400-16945200	Enhancers	Rectal Mucosa Donor 29	rectum
17	chr11:16941400-16945400	Enhancers	Fetal Intestine Large	intestine
18	chr11:16941600-16945000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr11:16941800-16944200	Weak transcription	HMEC	breast
20	chr11:16942400-16944800	Enhancers	Duodenum Mucosa	Duodenum
21	chr11:16942400-16945800	Weak transcription	Liver	Liver
22	chr11:16942800-16945400	Enhancers	Ovary	ovary
23	chr11:16943000-16944000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr11:16943000-16944000	Weak transcription	Left Ventricle	heart
25	chr11:16943000-16944000	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr11:16943400-16944800	Enhancers	Small Intestine	intestine
27	chr11:16943400-16946400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr11:16943600-16944200	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
29	chr11:16943600-16944600	Active TSS	Fetal Heart	heart
30	chr11:16943600-16945000	Enhancers	Colonic Mucosa	Colon
31	chr11:16943600-16945800	Enhancers	Placenta Amnion	Placenta Amnion
32	chr11:16943800-16944400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr11:16943800-16946200	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links