Variant report

Variant	rs9398865
Chromosome Location	chr6:128527029-128527030
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1012049	0.82[CHB][hapmap]
rs12055776	0.87[JPT][hapmap];0.89[ASN][1000 genomes]
rs17055441	1.00[CEU][hapmap];0.87[CHB][hapmap];0.82[CHD][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs17055472	1.00[TSI][hapmap]
rs2073161	0.81[CHD][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs3813371	0.87[CHB][hapmap];0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs3813372	0.86[CHB][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs3813373	0.80[CHB][hapmap];0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs4140542	0.92[JPT][hapmap];0.86[ASN][1000 genomes]
rs4243494	1.00[CEU][hapmap];0.87[CHB][hapmap];0.84[CHD][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4421217	0.82[ASN][1000 genomes]
rs4483000	0.87[CHD][hapmap];0.88[JPT][hapmap];1.00[TSI][hapmap];0.88[ASN][1000 genomes]
rs4557544	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs4628122	1.00[CEU][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs4897252	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs61422755	0.88[ASN][1000 genomes]
rs6930547	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6933029	1.00[CEU][hapmap];0.87[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6938118	0.87[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs730202	1.00[TSI][hapmap]
rs742736	1.00[TSI][hapmap]
rs7753945	0.87[CHB][hapmap];0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs7755473	0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs9321111	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9372887	0.84[CHD][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[ASN][1000 genomes]
rs9375550	0.89[JPT][hapmap]
rs9375551	0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9375552	1.00[CEU][hapmap];0.87[CHB][hapmap];0.85[CHD][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9375553	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9375554	0.87[CHD][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[ASN][1000 genomes]
rs9375555	1.00[TSI][hapmap]
rs9385450	1.00[EUR][1000 genomes]
rs9385452	0.87[CHD][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[ASN][1000 genomes]
rs9385454	0.88[ASN][1000 genomes]
rs9388618	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9388619	0.82[ASN][1000 genomes]
rs9388621	1.00[CEU][hapmap];0.87[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9388622	1.00[CEU][hapmap];0.87[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9388623	1.00[CEU][hapmap];0.92[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9388624	0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs9388629	1.00[MEX][hapmap]
rs9398864	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9398866	1.00[CEU][hapmap];0.87[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs9398867	0.84[CHD][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[ASN][1000 genomes]
rs9398868	1.00[TSI][hapmap]
rs9402019	1.00[EUR][1000 genomes]
rs9402023	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[JPT][hapmap]
rs9402025	0.87[CHD][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];0.89[ASN][1000 genomes]
rs9402027	0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs9402028	0.89[ASN][1000 genomes]
rs9402030	1.00[TSI][hapmap]
rs9402031	0.92[JPT][hapmap];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv886649	chr6:128399657-128808054	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv604646	chr6:128421762-128531651	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv604647	chr6:128421762-128547177	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv886651	chr6:128450019-128565778	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv886653	chr6:128455539-128555805	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv886654	chr6:128471938-128555805	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128488200-128565200	Weak transcription	Fetal Stomach	stomach
2	chr6:128492600-128567800	Weak transcription	Ovary	ovary
3	chr6:128503200-128541800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr6:128505800-128538800	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr6:128505800-128552200	Weak transcription	Duodenum Mucosa	Duodenum
6	chr6:128506000-128561000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr6:128514000-128530600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:128516000-128530400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr6:128520400-128536800	Weak transcription	Fetal Intestine Large	intestine
10	chr6:128520400-128573800	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr6:128520800-128528200	Weak transcription	NH-A	brain
12	chr6:128522000-128560800	Weak transcription	Primary T cells from cord blood	blood
13	chr6:128522600-128530400	Weak transcription	Liver	Liver
14	chr6:128523800-128528000	Weak transcription	Right Atrium	heart
15	chr6:128523800-128530400	Weak transcription	Right Ventricle	heart
16	chr6:128523800-128538200	Weak transcription	Fetal Thymus	thymus
17	chr6:128523800-128540600	Weak transcription	Lung	lung
18	chr6:128523800-128543600	Weak transcription	Left Ventricle	heart
19	chr6:128524000-128528400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:128524000-128528400	Weak transcription	HepG2	liver
21	chr6:128525000-128535000	Weak transcription	Primary B cells from peripheral blood	blood
22	chr6:128525200-128530000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr6:128525200-128539000	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr6:128525400-128527400	Enhancers	Osteobl	bone
25	chr6:128525600-128527400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr6:128526200-128528000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr6:128526200-128529200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr6:128526400-128528200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr6:128526400-128529000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
30	chr6:128526400-128529000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr6:128526400-128529000	Weak transcription	HMEC	breast
32	chr6:128526400-128529200	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr6:128526400-128529200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr6:128526400-128531000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr6:128526600-128527800	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr6:128526600-128529000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr6:128526600-128529200	Weak transcription	Hela-S3	cervix
38	chr6:128526600-128530400	Weak transcription	Primary B cells from cord blood	blood
39	chr6:128526800-128528200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr6:128526800-128528200	Weak transcription	NHEK	skin
41	chr6:128526800-128541200	Weak transcription	Adipose Nuclei	Adipose
42	chr6:128527000-128527800	Weak transcription	HSMM	muscle
43	chr6:128527000-128528000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr6:128527000-128528000	Weak transcription	HSMMtube	muscle
45	chr6:128527000-128529000	Weak transcription	NHDF-Ad	bronchial
46	chr6:128527000-128543600	Weak transcription	Fetal Intestine Small	intestine

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