Variant report

Variant	rs1894625
Chromosome Location	chr1:172606614-172606615
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:172605365..172608863-chr1:172611865..172614663,3	K562	blood:
2	chr1:172600388..172603451-chr1:172605464..172607588,3	MCF-7	breast:
3	chr1:172604637..172606919-chr1:172618615..172620134,2	K562	blood:
4	chr1:172595240..172596815-chr1:172605161..172606970,2	K562	blood:
5	chr1:172412107..172414513-chr1:172606008..172608594,2	K562	blood:
6	chr1:172605365..172608038-chr1:172613120..172614663,2	K562	blood:

Variant related genes	Relation type
ENSG00000135845	Chromatin interaction
ENSG00000180999	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10157500	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10157519	0.82[JPT][hapmap]
rs10752994	0.95[CHB][hapmap];0.91[ASN][1000 genomes]
rs10798040	0.82[JPT][hapmap]
rs10911856	0.81[AMR][1000 genomes]
rs10912058	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10912080	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10912083	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10912084	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11805370	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12087284	1.00[CEU][hapmap];0.91[CHB][hapmap];0.82[JPT][hapmap];0.96[YRI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12121051	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12146100	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1894626	0.91[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs2097492	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2097493	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2097494	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2157420	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2227188	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2285144	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2422144	0.81[AMR][1000 genomes]
rs2472550	1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2472552	1.00[CEU][hapmap];0.86[CHB][hapmap];0.96[YRI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2639621	0.89[EUR][1000 genomes]
rs3752515	1.00[CEU][hapmap];0.91[CHB][hapmap];0.96[YRI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3768444	1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.96[YRI][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4433434	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6424973	1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.93[YRI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6425007	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6656713	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6686080	1.00[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap];0.96[YRI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6686157	1.00[CEU][hapmap];0.96[CHB][hapmap];0.82[JPT][hapmap];0.96[YRI][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6695152	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7525372	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7531652	0.95[CHB][hapmap];0.82[JPT][hapmap]
rs7539231	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7539443	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs763108	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9425646	0.96[CHB][hapmap];0.82[JPT][hapmap];0.92[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1894625	SUCO	cis	Muscle Skeletal	GTEx

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172603400-172608200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:172603600-172606800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr1:172605200-172608000	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr1:172605400-172606800	Enhancers	Primary T helper cells PMA-I stimulated	--
5	chr1:172605400-172607800	Enhancers	Primary T cells fromperipheralblood	blood
6	chr1:172605600-172606800	ZNF genes & repeats	Osteobl	bone
7	chr1:172605600-172607200	Enhancers	Primary T cells from cord blood	blood
8	chr1:172605600-172607200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
9	chr1:172605600-172607800	Enhancers	Primary T helper naive cells from peripheral blood	blood
10	chr1:172605600-172608400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr1:172605800-172607400	Enhancers	Primary T killer memory cells from peripheral blood	blood
12	chr1:172605800-172608000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
13	chr1:172605800-172610400	Enhancers	Placenta Amnion	Placenta Amnion
14	chr1:172606000-172607200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
15	chr1:172606000-172608000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
16	chr1:172606000-172608400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr1:172606200-172607600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr1:172606200-172608200	Enhancers	HMEC	breast
19	chr1:172606400-172606800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
20	chr1:172606400-172607000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr1:172606400-172607400	Enhancers	Dnd41	blood
22	chr1:172606400-172608000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
23	chr1:172606400-172608000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
24	chr1:172606400-172608200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr1:172606400-172608400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr1:172606600-172606800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr1:172606600-172606800	Enhancers	Esophagus	oesophagus
28	chr1:172606600-172606800	Enhancers	Left Ventricle	heart
29	chr1:172606600-172607200	Enhancers	NH-A	brain
30	chr1:172606600-172607600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr1:172606600-172608000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
32	chr1:172606600-172608000	Enhancers	Rectal Mucosa Donor 29	rectum
33	chr1:172606600-172608000	Flanking Active TSS	NHEK	skin
34	chr1:172606600-172608400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr1:172606600-172608400	Enhancers	HSMM	muscle
36	chr1:172606600-172609600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr1:172606600-172609600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr1:172606600-172609600	Enhancers	NHLF	lung
39	chr1:172606600-172609800	Enhancers	Fetal Thymus	thymus
40	chr1:172606600-172609800	Enhancers	NHDF-Ad	bronchial
41	chr1:172606600-172610400	Enhancers	K562	blood
42	chr1:172606600-172610800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr1:172606600-172610800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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