Variant report

Variant	rs17770612
Chromosome Location	chr7:39611377-39611378
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr7:39611099-39611557	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr7:39604590..39607851-chr7:39609967..39614867,7	K562	blood:
2	chr7:39606078..39608053-chr7:39609216..39613025,4	MCF-7	breast:
3	chr7:39610504..39612853-chr7:39613535..39615540,2	K562	blood:

Variant related genes	Relation type
ENSG00000236015	TF binding region
ENSG00000227172	Chromatin interaction
ENSG00000241127	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10245247	0.80[ASN][1000 genomes]
rs10258946	0.84[ASN][1000 genomes]
rs10266149	0.84[ASN][1000 genomes]
rs10486798	0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs12111908	0.84[ASN][1000 genomes]
rs17171603	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17713754	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17713951	0.93[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs17714049	0.84[ASN][1000 genomes]
rs17770356	1.00[EUR][1000 genomes]
rs17770379	1.00[EUR][1000 genomes]
rs17770594	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17770625	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1989533	0.82[ASN][1000 genomes]
rs2329455	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2329461	0.84[ASN][1000 genomes]
rs2329462	0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs2329463	0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs4723881	0.84[ASN][1000 genomes]
rs4723882	0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs4723883	0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs4723884	0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs4723885	0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs58299139	1.00[ASN][1000 genomes]
rs59071947	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61493712	0.84[ASN][1000 genomes]
rs6968742	0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs73375695	1.00[ASN][1000 genomes]
rs7785964	1.00[ASN][1000 genomes]
rs7796063	0.91[JPT][hapmap];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021180	chr7:39424988-39642261	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1026951	chr7:39429036-39642261	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1018430	chr7:39455497-39643569	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv887970	chr7:39587912-39688152	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
5	nsv970467	chr7:39605971-39615006	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39606400-39614000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr7:39606600-39616200	Weak transcription	Spleen	Spleen
3	chr7:39606600-39616600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr7:39606600-39616800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr7:39606600-39618600	Weak transcription	Gastric	stomach
6	chr7:39606600-39619800	Weak transcription	Lung	lung
7	chr7:39607000-39611400	Weak transcription	Left Ventricle	heart
8	chr7:39607000-39616800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr7:39607000-39618800	Weak transcription	Right Ventricle	heart
10	chr7:39607000-39619800	Weak transcription	Ovary	ovary
11	chr7:39607000-39623800	Weak transcription	Pancreas	Pancrea
12	chr7:39607000-39631400	Weak transcription	Aorta	Aorta
13	chr7:39607200-39611400	Weak transcription	Brain Angular Gyrus	brain
14	chr7:39607200-39611400	Weak transcription	Brain Cingulate Gyrus	brain
15	chr7:39607200-39611400	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr7:39607200-39611400	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr7:39607200-39612000	Weak transcription	Stomach Smooth Muscle	stomach
18	chr7:39607200-39614000	Weak transcription	Fetal Intestine Small	intestine
19	chr7:39607200-39614200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr7:39607200-39615600	Weak transcription	Psoas Muscle	Psoas
21	chr7:39607200-39616000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr7:39607200-39617200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr7:39607200-39619200	Weak transcription	Colonic Mucosa	Colon
24	chr7:39607200-39620000	Weak transcription	Rectal Smooth Muscle	rectum
25	chr7:39607200-39620200	Weak transcription	Small Intestine	intestine
26	chr7:39607200-39620200	Weak transcription	Stomach Mucosa	stomach
27	chr7:39607200-39620200	Weak transcription	Thymus	Thymus
28	chr7:39607200-39621000	Weak transcription	Right Atrium	heart
29	chr7:39607200-39623200	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr7:39607200-39628800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr7:39607200-39629000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr7:39607400-39611400	Weak transcription	Colon Smooth Muscle	Colon
33	chr7:39607400-39612000	Weak transcription	Brain Hippocampus Middle	brain
34	chr7:39607400-39614600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
35	chr7:39607400-39616000	Weak transcription	Pancreatic Islets	Pancreatic Islet
36	chr7:39607600-39611400	Weak transcription	NHDF-Ad	bronchial
37	chr7:39607600-39611800	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr7:39607600-39611800	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr7:39607600-39611800	Weak transcription	HMEC	breast
40	chr7:39607600-39613800	Weak transcription	Fetal Stomach	stomach
41	chr7:39607600-39615400	Weak transcription	Fetal Brain Male	brain
42	chr7:39607600-39615600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
43	chr7:39607600-39615800	Weak transcription	HSMMtube	muscle
44	chr7:39607600-39618000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr7:39607600-39618000	Weak transcription	Brain Inferior Temporal Lobe	brain
46	chr7:39607600-39619000	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr7:39607600-39620200	Weak transcription	Brain Substantia Nigra	brain
48	chr7:39607600-39620200	Weak transcription	Fetal Heart	heart
49	chr7:39607600-39628600	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr7:39607600-39629400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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