Variant report

Variant	rs2713937
Chromosome Location	chr15:56497334-56497335
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:56492206..56494642-chr15:56495488..56498069,2	MCF-7	breast:
2	chr15:56496910..56499892-chr15:56507573..56509355,2	K562	blood:
3	chr15:56495337..56498069-chr15:56534935..56537509,2	K562	blood:

Variant related genes	Relation type
ENSG00000181827	Chromatin interaction
ENSG00000151575	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10152826	0.88[CEU][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10162834	1.00[CEU][hapmap];0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs10163161	1.00[CEU][hapmap];0.83[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10438327	0.87[CEU][hapmap]
rs1072358	0.81[EUR][1000 genomes]
rs11632218	0.88[CEU][hapmap];0.83[JPT][hapmap];0.81[EUR][1000 genomes]
rs11853962	0.92[CEU][hapmap];0.80[EUR][1000 genomes]
rs11858173	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11858245	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12898789	0.81[EUR][1000 genomes]
rs12899534	1.00[CEU][hapmap];0.82[JPT][hapmap];0.84[EUR][1000 genomes]
rs12907445	0.81[EUR][1000 genomes]
rs12909153	0.80[EUR][1000 genomes]
rs13379820	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17238601	1.00[CEU][hapmap];0.83[JPT][hapmap];0.82[EUR][1000 genomes]
rs17238691	0.92[CEU][hapmap];0.80[EUR][1000 genomes]
rs17819444	0.80[EUR][1000 genomes]
rs1829543	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2247838	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2414466	0.82[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.94[ASN][1000 genomes]
rs2460649	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2465405	0.96[CEU][hapmap];0.83[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2465969	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2554287	0.92[CEU][hapmap]
rs2584689	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2682030	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2682031	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2682032	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2682048	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2682050	0.83[JPT][hapmap]
rs2682055	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2713922	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2713934	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2713939	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2718921	0.88[CEU][hapmap]
rs2718924	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2718947	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2725856	0.92[CEU][hapmap]
rs2725871	0.83[JPT][hapmap]
rs2947023	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34544252	0.80[EUR][1000 genomes]
rs35131119	0.81[EUR][1000 genomes]
rs35187662	0.81[EUR][1000 genomes]
rs35840822	0.84[EUR][1000 genomes]
rs36082281	0.80[EUR][1000 genomes]
rs4774852	0.86[AMR][1000 genomes]
rs4774854	0.92[CEU][hapmap]
rs56274791	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61010710	0.86[AMR][1000 genomes]
rs62044114	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6493836	0.89[ASN][1000 genomes]
rs6493844	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7163807	0.92[CEU][hapmap];0.83[JPT][hapmap]
rs748344	0.92[CEU][hapmap];0.83[JPT][hapmap];0.80[EUR][1000 genomes]
rs767142	0.81[EUR][1000 genomes]
rs8032826	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs8041422	0.87[CEU][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs894415	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833019	chr15:56486029-56649933	Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv528965	chr15:56489159-56504598	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56453600-56515000	Weak transcription	NHLF	lung
2	chr15:56457400-56500400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:56459200-56511000	Weak transcription	Esophagus	oesophagus
4	chr15:56464600-56497800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr15:56466000-56500000	Weak transcription	Thymus	Thymus
6	chr15:56466000-56514200	Weak transcription	Duodenum Mucosa	Duodenum
7	chr15:56467000-56500400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr15:56467000-56511600	Weak transcription	Fetal Intestine Small	intestine
9	chr15:56470200-56498800	Weak transcription	Dnd41	blood
10	chr15:56470800-56503800	Weak transcription	Fetal Lung	lung
11	chr15:56477000-56500400	Weak transcription	Liver	Liver
12	chr15:56480000-56500000	Weak transcription	Primary T cells fromperipheralblood	blood
13	chr15:56480200-56515400	Weak transcription	Hela-S3	cervix
14	chr15:56481400-56497800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr15:56482600-56500200	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr15:56484800-56500000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr15:56485000-56502800	Weak transcription	Gastric	stomach
18	chr15:56485600-56500000	Weak transcription	Aorta	Aorta
19	chr15:56485600-56521200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr15:56489200-56503600	Weak transcription	Primary hematopoietic stem cells	blood
21	chr15:56490600-56497400	Weak transcription	HepG2	liver
22	chr15:56491600-56497400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr15:56492400-56497400	Weak transcription	Primary T cells from cord blood	blood
24	chr15:56493000-56500000	Weak transcription	Ovary	ovary
25	chr15:56493200-56515400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr15:56493600-56497600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr15:56494800-56497400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
28	chr15:56495000-56500000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr15:56495200-56500000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr15:56495200-56500000	Weak transcription	Psoas Muscle	Psoas
31	chr15:56495200-56501600	Enhancers	Primary B cells from peripheral blood	blood
32	chr15:56495200-56504400	Weak transcription	Fetal Intestine Large	intestine
33	chr15:56495400-56497400	Enhancers	Osteobl	bone
34	chr15:56495400-56499000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr15:56495800-56497400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr15:56495800-56499800	Enhancers	Primary B cells from cord blood	blood
37	chr15:56495800-56500400	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr15:56496000-56497800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr15:56496000-56498200	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr15:56496200-56498000	Enhancers	Breast Myoepithelial Primary Cells	Breast
41	chr15:56496200-56498000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
42	chr15:56496200-56498200	Enhancers	Primary monocytes fromperipheralblood	blood
43	chr15:56496200-56498400	Enhancers	Primary T helper naive cells from peripheral blood	blood
44	chr15:56496400-56498400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr15:56496400-56498400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
46	chr15:56496400-56498600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr15:56496400-56501200	Enhancers	Primary T helper cells PMA-I stimulated	--
48	chr15:56496600-56497400	Enhancers	NHEK	skin
49	chr15:56496600-56498000	Enhancers	Monocytes-CD14+_RO01746	blood
50	chr15:56496600-56498400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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