Variant report

Variant	rs16956124
Chromosome Location	chr15:72023634-72023635
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:72022171..72024073-chr15:72028306..72030232,2	MCF-7	breast:
2	chr15:72021844..72025193-chr15:72027846..72030756,3	MCF-7	breast:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11858936	0.91[ASN][1000 genomes]
rs12437539	0.91[ASN][1000 genomes]
rs12915432	0.91[ASN][1000 genomes]
rs1501421	0.91[ASN][1000 genomes]
rs1604334	0.88[ASN][1000 genomes]
rs16953738	1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs16956129	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16956157	1.00[CHB][hapmap];0.85[JPT][hapmap];0.94[ASN][1000 genomes]
rs2047685	0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.91[ASN][1000 genomes]
rs2047690	0.91[ASN][1000 genomes]
rs2047691	0.91[ASN][1000 genomes]
rs2134064	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2899771	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4328388	0.91[ASN][1000 genomes]
rs4365247	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4776571	0.91[ASN][1000 genomes]
rs4776574	0.88[ASN][1000 genomes]
rs4777442	1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4777444	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs4777449	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs56790826	0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs57091071	0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs57874901	0.88[ASN][1000 genomes]
rs57931860	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73430296	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73432428	0.88[ASN][1000 genomes]
rs73432430	0.88[ASN][1000 genomes]
rs8036340	0.91[ASN][1000 genomes]
rs8041263	0.91[ASN][1000 genomes]
rs872472	1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs872475	0.81[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs972708	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904334	chr15:71737376-72177659	Strong transcription Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1036938	chr15:71948106-72272855	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	nsv904335	chr15:72018469-72064719	Enhancers Strong transcription ZNF genes & repeats Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72005800-72024600	Weak transcription	Left Ventricle	heart
2	chr15:72009200-72030000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:72017000-72048800	Weak transcription	Placenta	Placenta
4	chr15:72018200-72024800	Weak transcription	A549	lung
5	chr15:72019200-72023800	Weak transcription	Fetal Intestine Large	intestine
6	chr15:72019200-72030400	Weak transcription	Lung	lung
7	chr15:72019600-72030000	Weak transcription	Esophagus	oesophagus
8	chr15:72019800-72023800	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr15:72020200-72039000	Weak transcription	Pancreas	Pancrea
10	chr15:72020400-72025800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr15:72021200-72024400	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr15:72021400-72024600	Weak transcription	Stomach Mucosa	stomach
13	chr15:72021600-72071400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr15:72022000-72027600	Enhancers	Liver	Liver
15	chr15:72022200-72025800	Enhancers	Fetal Heart	heart
16	chr15:72022400-72025600	Strong transcription	NHEK	skin
17	chr15:72022600-72025600	Strong transcription	Fetal Muscle Trunk	muscle
18	chr15:72022800-72024200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:72022800-72025200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr15:72022800-72025200	Weak transcription	Spleen	Spleen
21	chr15:72022800-72027400	Weak transcription	NHLF	lung
22	chr15:72023000-72025400	Weak transcription	Colonic Mucosa	Colon
23	chr15:72023000-72025600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr15:72023400-72024000	Strong transcription	Fetal Intestine Small	intestine
25	chr15:72023400-72024000	Strong transcription	Fetal Muscle Leg	muscle
26	chr15:72023400-72024400	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr15:72023400-72024600	Weak transcription	HepG2	liver
28	chr15:72023400-72025200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr15:72023400-72025600	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr15:72023400-72025600	Strong transcription	Fetal Stomach	stomach
31	chr15:72023400-72025800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr15:72023600-72025800	Strong transcription	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links