Variant report

Variant	rs7740830
Chromosome Location	chr6:86262727-86262728
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:86259058..86261534-chr6:86261647..86264216,2	MCF-7	breast:
2	chr6:86258616..86262862-chr6:86386972..86389770,3	K562	blood:

Variant related genes	Relation type
ENSG00000135317	Chromatin interaction
ENSG00000203875	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs13192070	0.82[ASN][1000 genomes]
rs13194512	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13198956	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13202606	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes]
rs13208740	1.00[CEU][hapmap];0.84[TSI][hapmap]
rs16876230	0.84[EUR][1000 genomes]
rs16876340	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16876385	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16876414	0.82[ASW][hapmap];0.81[CHD][hapmap]
rs16876418	0.82[ASW][hapmap];0.81[CHD][hapmap]
rs1793	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2095483	0.82[ASW][hapmap];0.81[CHD][hapmap]
rs34239697	0.91[EUR][1000 genomes]
rs34898046	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34936540	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35121980	0.87[EUR][1000 genomes]
rs35367106	0.91[EUR][1000 genomes]
rs35694036	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35712823	0.87[EUR][1000 genomes]
rs35988746	0.83[EUR][1000 genomes]
rs36088473	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3734442	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];0.90[TSI][hapmap];1.00[EUR][1000 genomes]
rs3900740	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4707206	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4707213	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55648312	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55810446	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs67493405	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6906121	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6909402	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6909654	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6910641	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6915519	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs71570763	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71570764	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71570766	0.91[EUR][1000 genomes]
rs7738371	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7742792	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7766863	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7771577	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9450302	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022445	chr6:85972678-86392968	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
2	nsv538349	chr6:85972678-86392968	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
3	esv3326486	chr6:86020165-86292456	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	esv3435075	chr6:86052235-86271910	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv463937	chr6:86114766-86264374	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
6	nsv604092	chr6:86114766-86264374	Genic enhancers Flanking Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
7	nsv886333	chr6:86199243-86289415	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
8	nsv463939	chr6:86205323-86279737	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv470839	chr6:86205323-86279737	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv604093	chr6:86205323-86279737	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv886334	chr6:86214507-86394403	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	124 gene(s)	inside rSNPs	diseases
12	esv1792638	chr6:86224053-86336300	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
13	nsv516516	chr6:86234835-86278691	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:86208800-86284600	Weak transcription	Small Intestine	intestine
2	chr6:86208800-86289200	Weak transcription	Pancreas	Pancrea
3	chr6:86218400-86266200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:86221800-86285800	Weak transcription	Fetal Brain Male	brain
5	chr6:86222600-86289400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:86223400-86262800	Weak transcription	Stomach Mucosa	stomach
7	chr6:86223400-86285000	Weak transcription	Brain Substantia Nigra	brain
8	chr6:86224000-86279000	Weak transcription	NHLF	lung
9	chr6:86224200-86302600	Weak transcription	Colonic Mucosa	Colon
10	chr6:86230000-86263000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:86231200-86285000	Weak transcription	Hela-S3	cervix
12	chr6:86233800-86289200	Weak transcription	Spleen	Spleen
13	chr6:86236600-86279000	Weak transcription	HMEC	breast
14	chr6:86241400-86283600	Weak transcription	Fetal Kidney	kidney
15	chr6:86243200-86285200	Weak transcription	Psoas Muscle	Psoas
16	chr6:86243200-86286000	Weak transcription	Rectal Smooth Muscle	rectum
17	chr6:86243400-86269600	Weak transcription	Brain Anterior Caudate	brain
18	chr6:86243400-86301400	Weak transcription	Thymus	Thymus
19	chr6:86243600-86285000	Weak transcription	Brain Cingulate Gyrus	brain
20	chr6:86243600-86285800	Weak transcription	Fetal Brain Female	brain
21	chr6:86243600-86286200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr6:86243800-86284800	Weak transcription	Brain Angular Gyrus	brain
23	chr6:86244000-86262800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr6:86244000-86265400	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr6:86244200-86279000	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr6:86244200-86286000	Weak transcription	Right Ventricle	heart
27	chr6:86244200-86289200	Weak transcription	Gastric	stomach
28	chr6:86244400-86281000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr6:86246400-86279000	Weak transcription	NHEK	skin
30	chr6:86246600-86265000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr6:86246600-86270800	Weak transcription	HUVEC	blood vessel
32	chr6:86246600-86274200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr6:86248200-86271200	Strong transcription	Primary monocytes fromperipheralblood	blood
34	chr6:86250200-86284800	Weak transcription	Aorta	Aorta
35	chr6:86252800-86284400	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr6:86252800-86289600	Weak transcription	Esophagus	oesophagus
37	chr6:86253400-86286000	Weak transcription	Brain Germinal Matrix	brain
38	chr6:86254800-86271400	Weak transcription	Colon Smooth Muscle	Colon
39	chr6:86254800-86287800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr6:86255200-86264600	Weak transcription	Stomach Smooth Muscle	stomach
41	chr6:86256000-86278800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr6:86257400-86266400	Weak transcription	Placenta	Placenta
43	chr6:86257600-86285200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
44	chr6:86257800-86262800	Weak transcription	HSMM	muscle
45	chr6:86257800-86265000	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr6:86257800-86275800	Weak transcription	Brain Hippocampus Middle	brain
47	chr6:86258000-86264400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
48	chr6:86258000-86264600	Weak transcription	Ovary	ovary
49	chr6:86258000-86265200	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr6:86258000-86265200	Weak transcription	K562	blood

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