Variant report

Variant	rs402838
Chromosome Location	chr11:16912867-16912868
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:16912383..16915251-chr11:16918244..16921230,3	K562	blood:
2	chr11:16912383..16915657-chr11:16918244..16920114,3	K562	blood:
3	chr11:16910866..16914588-chr11:16915188..16918653,3	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10741712	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10766356	0.87[YRI][hapmap]
rs10832695	0.93[YRI][hapmap]
rs11820544	0.84[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs177545	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs177553	0.88[ASN][1000 genomes]
rs177556	0.88[ASN][1000 genomes]
rs177557	0.88[ASN][1000 genomes]
rs2041236	0.89[YRI][hapmap]
rs371303	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs378755	0.93[YRI][hapmap]
rs381163	0.81[EUR][1000 genomes]
rs388519	1.00[CEU][hapmap];0.83[CHB][hapmap];0.88[EUR][1000 genomes]
rs390302	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs392981	1.00[CEU][hapmap];0.92[CHB][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs393625	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs404646	1.00[CEU][hapmap];0.83[CHB][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs405268	1.00[CEU][hapmap];0.83[CHB][hapmap];0.88[EUR][1000 genomes]
rs407705	0.84[AMR][1000 genomes]
rs418113	1.00[CEU][hapmap];0.83[CHB][hapmap]
rs424921	0.88[EUR][1000 genomes]
rs427327	1.00[CEU][hapmap];0.83[CHB][hapmap];0.88[EUR][1000 genomes]
rs432373	0.93[YRI][hapmap]
rs439069	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6486320	0.88[ASN][1000 genomes]
rs6486321	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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
2	nsv7688	chr11:16912759-16939804	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16903600-16914400	Weak transcription	Right Atrium	heart
2	chr11:16905200-16913600	Weak transcription	Gastric	stomach
3	chr11:16905200-16913600	Weak transcription	Pancreas	Pancrea
4	chr11:16910000-16913600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr11:16910000-16917800	Weak transcription	Lung	lung
6	chr11:16911200-16916000	Enhancers	Stomach Mucosa	stomach
7	chr11:16911600-16913000	Enhancers	Fetal Heart	heart
8	chr11:16911600-16914800	Weak transcription	Fetal Intestine Small	intestine
9	chr11:16912200-16914400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr11:16912200-16923600	Weak transcription	A549	lung
11	chr11:16912400-16914000	Enhancers	Placenta	Placenta
12	chr11:16912400-16919400	Weak transcription	Liver	Liver
13	chr11:16912600-16913400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr11:16912600-16914200	Enhancers	Muscle Satellite Cultured Cells	--
15	chr11:16912600-16915600	Enhancers	NHDF-Ad	bronchial
16	chr11:16912600-16915800	Enhancers	HMEC	breast
17	chr11:16912600-16916000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr11:16912600-16916000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr11:16912800-16913000	Enhancers	Sigmoid Colon	Sigmoid Colon
20	chr11:16912800-16913600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr11:16912800-16913800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr11:16912800-16913800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr11:16912800-16914000	Enhancers	HSMMtube	muscle
24	chr11:16912800-16914000	Enhancers	NHEK	skin
25	chr11:16912800-16914600	Enhancers	Rectal Mucosa Donor 31	rectum
26	chr11:16912800-16915600	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links