Variant report

Variant	rs2497688
Chromosome Location	chr10:116256115-116256116
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	chr10:116255855..116258207-chr10:116259480..116261802,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11196758	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11196764	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11196766	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11196768	0.90[AMR][1000 genomes]
rs2475224	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2475225	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2475227	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2497679	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34374858	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3802737	0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7912323	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs941852	0.84[AMR][1000 genomes]
rs9421175	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[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	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	esv3321866	chr10:116253162-116257360	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116214600-116263600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr10:116222200-116264400	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr10:116225000-116267200	Weak transcription	Aorta	Aorta
4	chr10:116225600-116278800	Weak transcription	HSMM	muscle
5	chr10:116243000-116286200	Weak transcription	Spleen	Spleen
6	chr10:116245000-116258800	Weak transcription	Colonic Mucosa	Colon
7	chr10:116248000-116258200	Weak transcription	Fetal Intestine Large	intestine
8	chr10:116249600-116264800	Weak transcription	Pancreas	Pancrea
9	chr10:116249800-116259400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr10:116250000-116256600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr10:116250000-116256600	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr10:116250000-116256600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr10:116250000-116258400	Weak transcription	Fetal Intestine Small	intestine
14	chr10:116250000-116259400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr10:116250200-116256600	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr10:116250200-116256600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr10:116250200-116264600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr10:116250200-116265200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr10:116251000-116259000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
20	chr10:116251400-116258400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr10:116251400-116259200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
22	chr10:116252000-116267200	Weak transcription	Fetal Muscle Trunk	muscle
23	chr10:116252200-116264800	Weak transcription	Brain Substantia Nigra	brain
24	chr10:116252400-116263800	Weak transcription	Hela-S3	cervix
25	chr10:116252600-116256600	Weak transcription	Brain Hippocampus Middle	brain
26	chr10:116252600-116256600	Weak transcription	Fetal Brain Male	brain
27	chr10:116252600-116258000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr10:116252600-116258800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr10:116252600-116259400	Weak transcription	Brain Anterior Caudate	brain
30	chr10:116252600-116262800	Weak transcription	Psoas Muscle	Psoas
31	chr10:116252600-116264800	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr10:116252600-116264800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr10:116252600-116264800	Weak transcription	Stomach Smooth Muscle	stomach
34	chr10:116252800-116258600	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr10:116252800-116259400	Weak transcription	Right Atrium	heart
36	chr10:116253000-116256600	Weak transcription	H1 Cell Line	embryonic stem cell
37	chr10:116253000-116258000	Weak transcription	Small Intestine	intestine
38	chr10:116253000-116258600	Weak transcription	HMEC	breast
39	chr10:116253000-116258800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr10:116253000-116258800	Weak transcription	NHEK	skin
41	chr10:116253200-116256600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr10:116253200-116258800	Weak transcription	Fetal Thymus	thymus
43	chr10:116253200-116259400	Weak transcription	Gastric	stomach
44	chr10:116253200-116259400	Weak transcription	Thymus	Thymus
45	chr10:116253200-116264600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr10:116253200-116264800	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr10:116253600-116259400	Weak transcription	Pancreatic Islets	Pancreatic Islet
48	chr10:116253800-116257800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr10:116254000-116258600	Genic enhancers	Primary T cells from cord blood	blood
50	chr10:116254200-116256800	Genic enhancers	Primary T helper cells fromperipheralblood	blood

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