Variant report

Variant	rs1150722
Chromosome Location	chr6:28253532-28253533
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:28245880..28256877-chr6:28299741..28307557,21	K562	blood:
2	chr6:28251868..28254160-chr6:28254261..28256025,2	MCF-7	breast:
3	chr6:28248465..28251025-chr6:28251931..28253617,2	MCF-7	breast:
4	chr6:28252167..28254655-chr6:28264060..28265912,2	MCF-7	breast:
5	chr6:28188896..28191056-chr6:28251556..28253787,2	K562	blood:
6	chr6:28246849..28251135-chr6:28253254..28258623,13	K562	blood:
7	chr6:28252016..28254141-chr6:28279359..28281399,2	K562	blood:
8	chr6:28252150..28254646-chr6:28303488..28305026,3	K562	blood:
9	chr6:28249727..28254264-chr6:28300327..28304071,5	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000235109	Chromatin interaction
ENSG00000137338	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10080420	0.83[ASN][1000 genomes]
rs10484404	1.00[JPT][hapmap]
rs1150700	1.00[MEX][hapmap];0.92[YRI][hapmap]
rs1150715	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1150723	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs1150725	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1225600	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12332986	0.83[ASN][1000 genomes]
rs1600621	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1679723	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[ASN][1000 genomes]
rs1736892	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[ASN][1000 genomes]
rs1778510	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2108924	1.00[GIH][hapmap];1.00[JPT][hapmap]
rs2191036	0.83[ASN][1000 genomes]
rs2799076	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28475822	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2859375	1.00[JPT][hapmap]
rs3757180	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs3757183	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs6456812	0.86[ASW][hapmap];1.00[CHB][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs6456813	0.86[YRI][hapmap];0.87[AFR][1000 genomes]
rs6456817	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6456820	0.83[ASN][1000 genomes]
rs6899512	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6901001	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.96[ASN][1000 genomes]
rs6902583	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6908459	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.96[ASN][1000 genomes]
rs6910120	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs6912921	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6918043	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[ASN][1000 genomes]
rs6918631	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.96[ASN][1000 genomes]
rs6922161	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6922302	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6927023	0.83[ASN][1000 genomes]
rs6929449	1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.96[ASN][1000 genomes]
rs6929559	1.00[JPT][hapmap]
rs6938371	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6941222	0.83[ASN][1000 genomes]
rs7747772	1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7752448	1.00[JPT][hapmap]
rs7752721	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs7759855	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7767897	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9295769	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.96[ASN][1000 genomes]
rs9295770	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9461450	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9461452	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9461453	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9461457	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9468328	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9468335	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9468337	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9468341	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9468375	0.90[ASN][1000 genomes]
rs9468384	0.83[ASN][1000 genomes]
rs9654587	0.96[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830620	chr6:28173997-28348033	Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28249800-28272200	Weak transcription	Spleen	Spleen
2	chr6:28250000-28254800	Weak transcription	Primary B cells from cord blood	blood
3	chr6:28250000-28254800	Weak transcription	Pancreas	Pancrea
4	chr6:28250000-28254800	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr6:28250000-28255000	Weak transcription	Esophagus	oesophagus
6	chr6:28250000-28258000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:28250000-28258600	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr6:28250000-28277600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr6:28250000-28293800	Weak transcription	Gastric	stomach
10	chr6:28250200-28273800	Weak transcription	Thymus	Thymus
11	chr6:28250400-28254000	Weak transcription	Brain Anterior Caudate	brain
12	chr6:28250400-28265600	Weak transcription	Primary T cells from cord blood	blood
13	chr6:28250400-28278600	Weak transcription	Duodenum Mucosa	Duodenum
14	chr6:28250600-28253800	Weak transcription	HUVEC	blood vessel
15	chr6:28250600-28254800	Weak transcription	Fetal Thymus	thymus
16	chr6:28250600-28254800	Weak transcription	HMEC	breast
17	chr6:28250600-28254800	Weak transcription	NHDF-Ad	bronchial
18	chr6:28250600-28267000	Weak transcription	NHEK	skin
19	chr6:28250600-28270800	Weak transcription	Fetal Heart	heart
20	chr6:28250600-28280600	Weak transcription	Rectal Smooth Muscle	rectum
21	chr6:28250800-28256400	Strong transcription	A549	lung
22	chr6:28250800-28257600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr6:28250800-28270000	Weak transcription	Psoas Muscle	Psoas
24	chr6:28250800-28276800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr6:28251000-28253600	Strong transcription	Osteobl	bone
26	chr6:28251000-28254200	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr6:28251000-28255200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr6:28251000-28255600	Strong transcription	Brain Substantia Nigra	brain
29	chr6:28251000-28258200	Strong transcription	Fetal Muscle Leg	muscle
30	chr6:28251000-28258600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr6:28251000-28258600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr6:28251000-28270800	Weak transcription	Colonic Mucosa	Colon
33	chr6:28251000-28273800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
34	chr6:28251000-28277200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr6:28251000-28278800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr6:28251200-28254800	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr6:28251200-28254800	Weak transcription	Fetal Intestine Small	intestine
38	chr6:28251200-28256600	Strong transcription	Fetal Lung	lung
39	chr6:28251200-28257200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr6:28251200-28257600	Strong transcription	Duodenum Smooth Muscle	Duodenum
41	chr6:28251200-28258400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr6:28251200-28258400	Strong transcription	Cortex derived primary cultured neurospheres	brain
43	chr6:28251200-28259000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:28251200-28259400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr6:28251400-28255600	Strong transcription	K562	blood
46	chr6:28251400-28256200	Strong transcription	Skeletal Muscle Female	skeletal muscle
47	chr6:28251400-28256600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
48	chr6:28251400-28257400	Strong transcription	Adipose Nuclei	Adipose
49	chr6:28251400-28258000	Strong transcription	Fetal Brain Female	brain
50	chr6:28251400-28262200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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