Variant report

Variant	rs2237145
Chromosome Location	chr6:15425497-15425498
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15410616..15413310-chr6:15424661..15426461,2	MCF-7	breast:
2	chr6:15424021..15426137-chr6:15433751..15436727,2	K562	blood:
3	chr6:15424279..15427255-chr6:15429243..15432157,3	K562	blood:
4	chr6:15424906..15426863-chr6:15428621..15431301,2	MCF-7	breast:
5	chr6:15422447..15425279-chr6:15425487..15427798,3	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1474588	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2076055	0.96[CEU][hapmap];0.85[EUR][1000 genomes]
rs2237117	0.92[CEU][hapmap];0.87[EUR][1000 genomes]
rs2237118	0.87[EUR][1000 genomes]
rs2237120	0.81[CHB][hapmap]
rs2237121	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs2237124	0.92[CEU][hapmap];0.87[EUR][1000 genomes]
rs2237132	0.91[EUR][1000 genomes]
rs2237141	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2237149	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2237150	0.81[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs2237156	0.84[CEU][hapmap];0.83[JPT][hapmap]
rs2237157	0.81[CEU][hapmap]
rs2237158	0.81[YRI][hapmap]
rs2282821	0.87[CHB][hapmap]
rs2282825	0.91[CHB][hapmap]
rs2282826	0.87[CHB][hapmap]
rs2282827	0.87[CHB][hapmap]
rs2299045	1.00[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2299048	0.96[CEU][hapmap];0.95[EUR][1000 genomes]
rs2299053	0.82[CEU][hapmap];0.80[AMR][1000 genomes]
rs2299054	0.84[CEU][hapmap]
rs3778652	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs4085876	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6459406	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7754701	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7754755	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9349978	0.80[AMR][1000 genomes]
rs9349979	0.88[EUR][1000 genomes]
rs9358060	0.81[AMR][1000 genomes]
rs9370813	0.82[CEU][hapmap];0.81[AMR][1000 genomes]
rs9370817	0.96[CEU][hapmap];0.87[EUR][1000 genomes]
rs9370819	0.86[EUR][1000 genomes]
rs9383051	0.80[CEU][hapmap]
rs9383054	0.84[CEU][hapmap];0.86[JPT][hapmap];0.81[AMR][1000 genomes]
rs9476827	1.00[CEU][hapmap];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1030558	chr6:15234675-15449137	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv949448	chr6:15279490-15449441	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1025512	chr6:15291551-15452395	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv538143	chr6:15291551-15452395	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15401200-15426200	Weak transcription	Pancreas	Pancrea
2	chr6:15404800-15427600	Weak transcription	Stomach Smooth Muscle	stomach
3	chr6:15404800-15429000	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr6:15409200-15426200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr6:15414200-15427200	Weak transcription	Rectal Smooth Muscle	rectum
6	chr6:15414200-15427400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr6:15414200-15429200	Weak transcription	HSMM	muscle
8	chr6:15414600-15427800	Weak transcription	Fetal Brain Male	brain
9	chr6:15417000-15452200	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr6:15417800-15426800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr6:15420400-15425600	Weak transcription	NHEK	skin
12	chr6:15420400-15427400	Weak transcription	K562	blood
13	chr6:15420600-15426400	Weak transcription	HepG2	liver
14	chr6:15421200-15427000	Weak transcription	Liver	Liver
15	chr6:15421200-15427600	Weak transcription	Duodenum Mucosa	Duodenum
16	chr6:15421400-15426000	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr6:15421400-15426800	Weak transcription	Fetal Muscle Leg	muscle
18	chr6:15421400-15427400	Weak transcription	Brain Germinal Matrix	brain
19	chr6:15421400-15427400	Weak transcription	Fetal Intestine Small	intestine
20	chr6:15421400-15432400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:15421600-15426200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr6:15421600-15427200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr6:15421600-15429600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr6:15421600-15430800	Weak transcription	Aorta	Aorta
25	chr6:15422200-15426000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr6:15422400-15430200	Weak transcription	Fetal Muscle Trunk	muscle
27	chr6:15422800-15426000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr6:15422800-15426000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr6:15422800-15426000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr6:15422800-15426600	Weak transcription	Fetal Lung	lung
31	chr6:15422800-15427400	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr6:15422800-15430800	Weak transcription	Gastric	stomach
33	chr6:15422800-15433400	Weak transcription	Colonic Mucosa	Colon
34	chr6:15423000-15426200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr6:15423000-15426200	Weak transcription	Brain Angular Gyrus	brain
36	chr6:15423000-15427200	Weak transcription	Small Intestine	intestine
37	chr6:15423000-15427800	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr6:15423000-15427800	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr6:15423000-15429200	Weak transcription	Stomach Mucosa	stomach
40	chr6:15423200-15425800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr6:15423200-15426800	Weak transcription	Colon Smooth Muscle	Colon
42	chr6:15423200-15427000	Genic enhancers	HUES6 Cell Line	embryonic stem cell
43	chr6:15423400-15426400	Weak transcription	Brain Substantia Nigra	brain
44	chr6:15423400-15427400	Weak transcription	Thymus	Thymus
45	chr6:15423400-15427600	Weak transcription	Fetal Kidney	kidney
46	chr6:15423400-15427800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr6:15423600-15425800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr6:15423600-15425800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr6:15423600-15426000	Weak transcription	Brain Anterior Caudate	brain
50	chr6:15423600-15426000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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