Variant report

Variant	rs9480517
Chromosome Location	chr6:150992741-150992742
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10085221	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11968779	1.00[JPT][hapmap]
rs1352975	1.00[JPT][hapmap]
rs17080012	1.00[JPT][hapmap]
rs182140	1.00[ASN][1000 genomes]
rs1964631	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2345669	1.00[JPT][hapmap]
rs275348	1.00[JPT][hapmap]
rs4869921	1.00[JPT][hapmap]
rs4869922	1.00[JPT][hapmap]
rs4869924	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4869925	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4869932	1.00[JPT][hapmap]
rs4870533	1.00[JPT][hapmap]
rs4870534	1.00[JPT][hapmap]
rs4870535	1.00[JPT][hapmap]
rs4870537	1.00[JPT][hapmap]
rs73004397	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73006338	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73006339	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73008164	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73008165	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73008166	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73008169	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9478767	1.00[JPT][hapmap]
rs9478769	1.00[JPT][hapmap]
rs9478770	1.00[JPT][hapmap]
rs9478771	1.00[JPT][hapmap]
rs9478772	1.00[JPT][hapmap]
rs9478773	1.00[JPT][hapmap]
rs9478774	1.00[JPT][hapmap]
rs9478776	0.88[CEU][hapmap];0.87[AMR][1000 genomes]
rs9478777	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9478778	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480490	1.00[JPT][hapmap]
rs9480492	1.00[JPT][hapmap]
rs9480493	1.00[JPT][hapmap]
rs9480494	1.00[JPT][hapmap]
rs9480495	1.00[JPT][hapmap]
rs9480496	1.00[JPT][hapmap]
rs9480497	1.00[JPT][hapmap]
rs9480503	1.00[JPT][hapmap]
rs9480505	1.00[JPT][hapmap]
rs9480511	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9480512	1.00[CEU][hapmap];0.94[AMR][1000 genomes]
rs9480513	0.97[AMR][1000 genomes]
rs9480515	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480516	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480518	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480520	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480521	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480522	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480523	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480524	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480534	0.91[AFR][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	nsv886772	chr6:150743364-151024280	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1030326	chr6:150967665-151641372	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150975600-151002800	Weak transcription	Fetal Muscle Trunk	muscle
2	chr6:150980600-151008800	Weak transcription	Gastric	stomach
3	chr6:150980800-151014800	Weak transcription	Pancreas	Pancrea
4	chr6:150987600-150994800	Weak transcription	Lung	lung
5	chr6:150987600-151002800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:150987800-150994400	Weak transcription	Esophagus	oesophagus
7	chr6:150987800-151001400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr6:150988000-150994400	Weak transcription	Placenta	Placenta
9	chr6:150989400-151007800	Weak transcription	Ovary	ovary
10	chr6:150990400-150993600	Weak transcription	Fetal Brain Female	brain
11	chr6:150990400-150995400	Weak transcription	Stomach Mucosa	stomach
12	chr6:150990400-151003200	Weak transcription	Left Ventricle	heart
13	chr6:150990600-150993000	Weak transcription	Small Intestine	intestine
14	chr6:150990600-150994000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr6:150990600-150994000	Weak transcription	Brain Angular Gyrus	brain
16	chr6:150990600-150994000	Weak transcription	Colon Smooth Muscle	Colon
17	chr6:150990600-150994000	Weak transcription	Stomach Smooth Muscle	stomach
18	chr6:150990600-150994200	Weak transcription	Duodenum Mucosa	Duodenum
19	chr6:150990600-150994200	Weak transcription	Fetal Kidney	kidney
20	chr6:150990600-150994400	Weak transcription	Brain Cingulate Gyrus	brain
21	chr6:150990600-150994400	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr6:150990600-150994600	Weak transcription	Fetal Brain Male	brain
23	chr6:150990600-151002800	Weak transcription	Fetal Muscle Leg	muscle
24	chr6:150990600-151008800	Weak transcription	Rectal Smooth Muscle	rectum
25	chr6:150990600-151016600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr6:150990800-150992800	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr6:150990800-150993400	Weak transcription	Liver	Liver
28	chr6:150990800-150993600	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr6:150990800-150993800	Weak transcription	Fetal Lung	lung
30	chr6:150990800-150994200	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr6:150990800-150994400	Weak transcription	Fetal Intestine Small	intestine
32	chr6:150990800-150997800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr6:150990800-150998000	Weak transcription	Fetal Stomach	stomach
34	chr6:150990800-151003200	Weak transcription	Adipose Nuclei	Adipose
35	chr6:150990800-151011800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr6:150991200-150994000	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr6:150991200-150994200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr6:150991400-150993000	Strong transcription	Primary B cells from cord blood	blood
39	chr6:150991600-150994400	Strong transcription	Primary B cells from peripheral blood	blood
40	chr6:150991800-150994400	Weak transcription	Spleen	Spleen
41	chr6:150992400-150992800	Genic enhancers	Fetal Thymus	thymus
42	chr6:150992600-150995800	Enhancers	Thymus	Thymus

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