Variant report

Variant	rs6721741
Chromosome Location	chr2:153250506-153250507
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10173398	0.82[JPT][hapmap]
rs10184210	1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10193625	0.81[JPT][hapmap]
rs10195380	0.82[JPT][hapmap]
rs10931075	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10931089	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11892232	0.83[JPT][hapmap]
rs11892662	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11898429	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11901392	0.83[JPT][hapmap]
rs12474369	0.80[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12614465	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12623070	0.81[JPT][hapmap]
rs16831066	0.94[JPT][hapmap]
rs2068886	0.81[JPT][hapmap]
rs2346201	0.80[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2346202	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2346204	0.82[JPT][hapmap]
rs35547021	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3811575	0.94[JPT][hapmap]
rs3901192	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4371310	0.94[JPT][hapmap]
rs4471845	0.81[JPT][hapmap]
rs4664579	0.88[JPT][hapmap]
rs4664583	0.93[JPT][hapmap]
rs56322636	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57851180	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59348655	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6434028	0.94[JPT][hapmap]
rs6724305	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6736639	0.87[JPT][hapmap]
rs6736856	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7590079	0.81[JPT][hapmap]
rs7602505	0.89[ASN][1000 genomes]
rs9288103	0.82[JPT][hapmap]
rs9677373	0.95[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs9678076	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9678127	0.84[EUR][1000 genomes];0.94[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	nsv834419	chr2:153179420-153381476	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv1005012	chr2:153206764-153273886	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	esv3693436	chr2:153219836-153479857	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:153226200-153251800	Weak transcription	HSMMtube	muscle
2	chr2:153229200-153252400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr2:153233800-153255400	Weak transcription	NHEK	skin
4	chr2:153237400-153255400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr2:153237400-153255400	Weak transcription	HMEC	breast
6	chr2:153238600-153258600	Weak transcription	Left Ventricle	heart
7	chr2:153241200-153251600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr2:153241200-153255400	Weak transcription	Pancreas	Pancrea
9	chr2:153242800-153252600	Weak transcription	A549	lung
10	chr2:153243000-153251600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr2:153243400-153252600	Weak transcription	Fetal Brain Female	brain
12	chr2:153243800-153252000	Weak transcription	Fetal Lung	lung
13	chr2:153245000-153251800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr2:153245800-153250800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr2:153245800-153250800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
16	chr2:153246000-153251400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr2:153246400-153251600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr2:153246600-153266600	Enhancers	Brain Substantia Nigra	brain
19	chr2:153247000-153251800	Enhancers	Brain Anterior Caudate	brain
20	chr2:153247000-153257800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr2:153247200-153255400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr2:153247400-153250800	Enhancers	Brain Angular Gyrus	brain
23	chr2:153247400-153251600	Weak transcription	Ovary	ovary
24	chr2:153247400-153252600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr2:153247400-153252600	Weak transcription	Fetal Stomach	stomach
26	chr2:153247400-153255400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr2:153247400-153277600	Weak transcription	Fetal Intestine Small	intestine
28	chr2:153247800-153251400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr2:153247800-153258800	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr2:153248000-153250800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
31	chr2:153248000-153251400	Weak transcription	Fetal Brain Male	brain
32	chr2:153248200-153251200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr2:153248200-153251600	Weak transcription	Psoas Muscle	Psoas
34	chr2:153248200-153251800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr2:153248800-153253600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr2:153249000-153252400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr2:153249000-153252600	Enhancers	Brain Cingulate Gyrus	brain
38	chr2:153249200-153252600	Enhancers	Brain Inferior Temporal Lobe	brain
39	chr2:153249200-153253800	Enhancers	iPS-15b Cell Line	embryonic stem cell
40	chr2:153249200-153254200	Enhancers	Cortex derived primary cultured neurospheres	brain
41	chr2:153249400-153251600	Weak transcription	Aorta	Aorta
42	chr2:153249400-153253200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr2:153249600-153250800	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr2:153249600-153251400	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr2:153249600-153251600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr2:153249600-153255400	Weak transcription	Gastric	stomach
47	chr2:153249600-153255400	Weak transcription	Lung	lung
48	chr2:153249600-153259000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr2:153249800-153251600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr2:153250000-153251400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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