Variant report

Variant	rs6496880
Chromosome Location	chr15:92490217-92490218
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:92482980..92487918-chr15:92490119..92494508,7	MCF-7	breast:
2	chr15:92490131..92493308-chr15:92494366..92497413,4	MCF-7	breast:
3	chr15:92486176..92494051-chr15:92494562..92499303,11	MCF-7	breast:
4	chr15:92489785..92491813-chr15:92508129..92510292,2	MCF-7	breast:
5	chr15:92395904..92397967-chr15:92489405..92491043,2	MCF-7	breast:
6	chr15:92435577..92438094-chr15:92489816..92491916,2	MCF-7	breast:
7	chr15:92484652..92487230-chr15:92487270..92491872,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000176463	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10444871	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12901800	0.87[EUR][1000 genomes]
rs12906515	1.00[JPT][hapmap]
rs4244911	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4420511	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4932515	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4932518	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs6496877	0.95[CEU][hapmap]
rs6496878	0.91[CEU][hapmap]
rs7163871	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7164216	1.00[JPT][hapmap]
rs8027634	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs8028706	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs8031009	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8032981	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs8037251	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8037463	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][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	nsv1048635	chr15:92073294-92557339	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv534110	chr15:92397220-92592961	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92479000-92491200	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr15:92481800-92492600	Enhancers	Right Ventricle	heart
3	chr15:92482200-92492400	Enhancers	Brain Substantia Nigra	brain
4	chr15:92482600-92491800	Enhancers	Placenta	Placenta
5	chr15:92484800-92490400	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr15:92484800-92490400	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr15:92485000-92492000	Enhancers	Brain Inferior Temporal Lobe	brain
8	chr15:92485200-92490400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:92485200-92493800	Enhancers	Esophagus	oesophagus
10	chr15:92486400-92490400	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr15:92486400-92490400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr15:92486600-92491400	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr15:92486800-92491600	Weak transcription	Rectal Smooth Muscle	rectum
14	chr15:92486800-92493400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr15:92486800-92493800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr15:92486800-92493800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr15:92486800-92495600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr15:92487000-92491600	Weak transcription	Osteobl	bone
19	chr15:92487200-92490400	Weak transcription	Liver	Liver
20	chr15:92487200-92490800	Enhancers	Hela-S3	cervix
21	chr15:92487200-92491200	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr15:92487200-92491400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr15:92487200-92491800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr15:92487200-92496200	Weak transcription	Fetal Thymus	thymus
25	chr15:92487200-92496800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr15:92487400-92491000	Weak transcription	Colon Smooth Muscle	Colon
27	chr15:92487400-92492600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr15:92487600-92491000	Weak transcription	Colonic Mucosa	Colon
29	chr15:92487600-92491400	Weak transcription	Aorta	Aorta
30	chr15:92488000-92490400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr15:92488000-92490400	Weak transcription	Fetal Intestine Small	intestine
32	chr15:92488000-92490400	Weak transcription	Psoas Muscle	Psoas
33	chr15:92488000-92490600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr15:92488000-92491200	Weak transcription	HSMMtube	muscle
35	chr15:92488000-92493800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr15:92488200-92490400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr15:92488200-92490400	Weak transcription	NHDF-Ad	bronchial
38	chr15:92488200-92491600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr15:92488600-92492400	Enhancers	Right Atrium	heart
40	chr15:92488600-92492600	Enhancers	Left Ventricle	heart
41	chr15:92488800-92492000	Enhancers	Brain Anterior Caudate	brain
42	chr15:92488800-92492600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
43	chr15:92488800-92492600	Enhancers	Spleen	Spleen
44	chr15:92489000-92490600	Enhancers	Fetal Heart	heart
45	chr15:92489200-92490400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
46	chr15:92489200-92490600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr15:92489200-92491800	Enhancers	Primary hematopoietic stem cells	blood
48	chr15:92489200-92492000	Enhancers	Fetal Lung	lung
49	chr15:92489200-92492400	Enhancers	Brain Cingulate Gyrus	brain
50	chr15:92489200-92492800	Enhancers	H1 Cell Line	embryonic stem cell

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