Variant report

Variant	rs9481003
Chromosome Location	chr6:110081618-110081619
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	chr6:110011565..110014032-chr6:110081170..110083207,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000155085	Chromatin interaction
ENSG00000112367	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10659	0.82[CEU][hapmap]
rs12171561	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13437149	0.81[JPT][hapmap]
rs17070874	0.82[CEU][hapmap]
rs17070970	0.82[CEU][hapmap]
rs17070972	0.82[CEU][hapmap]
rs17070984	0.82[CEU][hapmap]
rs2295835	0.82[CEU][hapmap];0.85[TSI][hapmap]
rs2295836	0.82[CEU][hapmap];0.81[JPT][hapmap];0.85[TSI][hapmap]
rs2357128	0.89[CHB][hapmap]
rs2357226	0.98[ASN][1000 genomes]
rs3823235	0.82[CEU][hapmap];0.80[JPT][hapmap]
rs4512266	0.82[CEU][hapmap]
rs6568587	0.82[CEU][hapmap]
rs6568598	0.87[ASN][1000 genomes]
rs6568600	0.95[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs6568602	0.95[CHB][hapmap];0.97[CHD][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs6568603	0.95[CHB][hapmap];1.00[CHD][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs6917383	0.82[CEU][hapmap]
rs6925005	0.82[CEU][hapmap];0.85[TSI][hapmap]
rs6933729	0.82[CEU][hapmap]
rs6941360	0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7356790	0.82[CEU][hapmap];0.85[TSI][hapmap]
rs7742066	0.82[CEU][hapmap]
rs7744512	0.82[CEU][hapmap]
rs7758697	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7765916	0.82[CEU][hapmap]
rs7767805	0.82[CEU][hapmap];0.85[TSI][hapmap]
rs829813	0.88[CHB][hapmap]
rs829814	0.89[CHB][hapmap]
rs9372226	0.82[CEU][hapmap];0.81[JPT][hapmap];0.85[TSI][hapmap]
rs9374121	0.81[JPT][hapmap]
rs9384717	0.89[CHB][hapmap]
rs9386835	0.82[CEU][hapmap];0.85[TSI][hapmap]
rs9386839	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9386842	0.82[CEU][hapmap]
rs9398214	0.82[CEU][hapmap];0.85[TSI][hapmap]
rs9398215	0.82[CEU][hapmap];0.85[TSI][hapmap]
rs9400320	0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9487202	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949475	chr6:109907936-110160501	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv5436	chr6:110052812-110097662	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv886533	chr6:110067773-110126393	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:110013000-110114400	Weak transcription	Right Ventricle	heart
2	chr6:110035000-110084000	Weak transcription	GM12878-XiMat	blood
3	chr6:110035200-110094200	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr6:110035400-110083000	Weak transcription	Brain Germinal Matrix	brain
5	chr6:110035600-110089000	Weak transcription	Spleen	Spleen
6	chr6:110036800-110115600	Weak transcription	Colonic Mucosa	Colon
7	chr6:110042200-110088800	Weak transcription	Fetal Intestine Small	intestine
8	chr6:110042400-110089000	Weak transcription	Brain Cingulate Gyrus	brain
9	chr6:110044200-110115400	Weak transcription	Brain Angular Gyrus	brain
10	chr6:110047200-110084000	Weak transcription	Small Intestine	intestine
11	chr6:110048600-110089800	Weak transcription	Fetal Kidney	kidney
12	chr6:110057200-110089000	Weak transcription	Fetal Brain Female	brain
13	chr6:110057400-110089000	Weak transcription	Esophagus	oesophagus
14	chr6:110057600-110086200	Weak transcription	Brain Anterior Caudate	brain
15	chr6:110058200-110087200	Weak transcription	Rectal Smooth Muscle	rectum
16	chr6:110058200-110089000	Weak transcription	Lung	lung
17	chr6:110058400-110085000	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr6:110058400-110089600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr6:110058800-110112400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr6:110059200-110124000	Weak transcription	Colon Smooth Muscle	Colon
21	chr6:110060000-110087800	Weak transcription	Fetal Thymus	thymus
22	chr6:110061200-110089200	Weak transcription	Pancreas	Pancrea
23	chr6:110062600-110089200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr6:110062800-110087400	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr6:110062800-110088000	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr6:110065200-110084000	Weak transcription	Left Ventricle	heart
27	chr6:110065200-110089000	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr6:110065200-110111200	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr6:110065400-110094200	Weak transcription	Brain Substantia Nigra	brain
30	chr6:110065600-110084000	Weak transcription	Placenta	Placenta
31	chr6:110065600-110087200	Weak transcription	HSMMtube	muscle
32	chr6:110065600-110087400	Weak transcription	Fetal Stomach	stomach
33	chr6:110065600-110089000	Weak transcription	Gastric	stomach
34	chr6:110065600-110089200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr6:110065800-110086200	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr6:110065800-110086400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr6:110065800-110087200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr6:110065800-110087200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr6:110065800-110088600	Weak transcription	Duodenum Mucosa	Duodenum
40	chr6:110065800-110089000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr6:110065800-110089000	Weak transcription	Brain Hippocampus Middle	brain
42	chr6:110065800-110089000	Weak transcription	Thymus	Thymus
43	chr6:110065800-110107400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr6:110065800-110107400	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr6:110066000-110087200	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr6:110067800-110089000	Weak transcription	Fetal Lung	lung
47	chr6:110068000-110083200	Weak transcription	Primary T cells fromperipheralblood	blood
48	chr6:110069400-110086800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr6:110069600-110082400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr6:110069800-110083000	Weak transcription	Liver	Liver

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