Variant report

Variant	rs6612250
Chromosome Location	chrX:55035557-55035558
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chrX:55033865..55037521-chrX:55039031..55040959,4	MCF-7	breast:
2	chrX:55004697..55006668-chrX:55034561..55037908,3	MCF-7	breast:
3	chrX:55025024..55029548-chrX:55030587..55036147,10	MCF-7	breast:
4	chrX:55034532..55036721-chrX:55082084..55084906,2	MCF-7	breast:
5	chrX:55030130..55032699-chrX:55032826..55036879,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000234466	Chromatin interaction
ENSG00000169188	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12009826	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs12009992	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs12011419	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs12013180	1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap]
rs6521221	0.84[YRI][hapmap]
rs6612254	1.00[TSI][hapmap]
rs7054008	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7055550	1.00[TSI][hapmap]
rs742049	1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap]
rs7876830	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7877193	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7881427	1.00[TSI][hapmap]
rs7884892	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7889977	0.85[ASW][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap]
rs7891167	0.84[YRI][hapmap]

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:55027400-55036000	Weak transcription	Aorta	Aorta
2	chrX:55027600-55035600	Weak transcription	Psoas Muscle	Psoas
3	chrX:55029000-55035800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chrX:55029800-55036000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chrX:55030000-55035600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chrX:55030800-55036800	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chrX:55032400-55036200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chrX:55033000-55036000	Weak transcription	Brain Anterior Caudate	brain
9	chrX:55033000-55036400	Enhancers	HMEC	breast
10	chrX:55033200-55036000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chrX:55033400-55035600	Weak transcription	Brain Angular Gyrus	brain
12	chrX:55033400-55035600	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chrX:55033400-55035600	Enhancers	Pancreas	Pancrea
14	chrX:55033400-55036200	Enhancers	Skeletal Muscle Female	skeletal muscle
15	chrX:55033400-55036400	Enhancers	NHEK	skin
16	chrX:55033400-55037400	Weak transcription	Brain Substantia Nigra	brain
17	chrX:55033600-55035600	Weak transcription	Primary B cells from peripheral blood	blood
18	chrX:55033600-55035800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chrX:55033600-55035800	Enhancers	Adipose Nuclei	Adipose
20	chrX:55033600-55035800	Enhancers	NH-A	brain
21	chrX:55033600-55035800	Enhancers	NHDF-Ad	bronchial
22	chrX:55033600-55036000	Enhancers	Placenta	Placenta
23	chrX:55033800-55035600	Weak transcription	Thymus	Thymus
24	chrX:55033800-55035800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chrX:55033800-55035800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chrX:55033800-55035800	Enhancers	Right Atrium	heart
27	chrX:55033800-55035800	Enhancers	HUVEC	blood vessel
28	chrX:55033800-55036000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chrX:55033800-55036400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chrX:55033800-55036600	Enhancers	Fetal Heart	heart
31	chrX:55034000-55035600	Weak transcription	Colonic Mucosa	Colon
32	chrX:55034000-55035800	Enhancers	K562	blood
33	chrX:55034000-55035800	Enhancers	Osteobl	bone
34	chrX:55034000-55036000	Enhancers	Left Ventricle	heart
35	chrX:55034000-55036000	Enhancers	HSMMtube	muscle
36	chrX:55034000-55036200	Enhancers	Fetal Intestine Small	intestine
37	chrX:55034000-55036400	Enhancers	Liver	Liver
38	chrX:55034000-55036400	Enhancers	Skeletal Muscle Male	skeletal muscle
39	chrX:55034000-55036800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chrX:55034200-55035600	Enhancers	Fetal Muscle Leg	muscle
41	chrX:55034200-55035800	Weak transcription	Primary neutrophils fromperipheralblood	blood
42	chrX:55034200-55035800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chrX:55034400-55036200	Enhancers	Primary monocytes fromperipheralblood	blood
44	chrX:55034400-55036200	Enhancers	Primary hematopoietic stem cells	blood
45	chrX:55034400-55036200	Enhancers	HSMM	muscle
46	chrX:55034600-55035600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chrX:55034600-55035600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chrX:55034600-55036000	Enhancers	Primary hematopoietic stem cells short term culture	blood
49	chrX:55034600-55036200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chrX:55034800-55035600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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