Variant report

Variant	rs66492085
Chromosome Location	chr2:153480409-153480410
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10497113	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10931263	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10931271	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1135617	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11674911	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11676069	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11694512	1.00[ASN][1000 genomes]
rs11901227	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12475871	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12478681	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12693429	1.00[ASN][1000 genomes]
rs12989903	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12995388	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12999331	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13003670	0.93[EUR][1000 genomes]
rs13006652	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13014141	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13017131	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13022436	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13023779	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13023975	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1370499	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16831440	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16831456	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17328776	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17400456	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17400938	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17400952	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17400980	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2083097	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2346551	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34199006	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34454505	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34469468	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34619076	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34775858	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35002744	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35421285	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35754252	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35894330	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35937874	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36107565	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs36122595	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3811568	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3811569	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4575677	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6434172	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs66849546	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6728189	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6736003	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71417232	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71417235	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72871148	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7591590	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7598878	0.92[EUR][1000 genomes];0.84[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	nsv1013777	chr2:153273637-153538546	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv834420	chr2:153339646-153535460	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv834421	chr2:153470109-153664235	Strong transcription Enhancers Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:153454800-153496600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr2:153457200-153505000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr2:153463800-153502800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr2:153464000-153502800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr2:153467200-153504000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr2:153468000-153483200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
7	chr2:153468600-153495800	Weak transcription	Esophagus	oesophagus
8	chr2:153468800-153492000	Weak transcription	Liver	Liver
9	chr2:153469000-153493800	Weak transcription	Spleen	Spleen
10	chr2:153469000-153496400	Weak transcription	Colonic Mucosa	Colon
11	chr2:153469000-153509800	Weak transcription	Small Intestine	intestine
12	chr2:153469200-153481200	Weak transcription	Right Atrium	heart
13	chr2:153469200-153484400	Weak transcription	Psoas Muscle	Psoas
14	chr2:153469200-153495200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr2:153469600-153487200	Weak transcription	Fetal Thymus	thymus
16	chr2:153469600-153496800	Weak transcription	HSMM	muscle
17	chr2:153470400-153483600	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr2:153470600-153483400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr2:153471000-153507000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr2:153471400-153482800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr2:153471600-153482200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr2:153472000-153522000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr2:153473000-153500600	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr2:153473800-153496400	Weak transcription	Osteobl	bone
25	chr2:153474400-153481400	Weak transcription	A549	lung
26	chr2:153474400-153486200	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr2:153474400-153505000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
28	chr2:153474800-153484800	Weak transcription	Ovary	ovary
29	chr2:153475200-153482000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr2:153475800-153493000	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr2:153476600-153492800	Weak transcription	Gastric	stomach
32	chr2:153477000-153484200	Weak transcription	Hela-S3	cervix
33	chr2:153477200-153483200	Weak transcription	Fetal Kidney	kidney
34	chr2:153477200-153484800	Weak transcription	Stomach Smooth Muscle	stomach
35	chr2:153477600-153489800	Weak transcription	Rectal Smooth Muscle	rectum
36	chr2:153477800-153480600	Strong transcription	Fetal Stomach	stomach
37	chr2:153477800-153481000	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr2:153477800-153483000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr2:153477800-153483200	Weak transcription	NHDF-Ad	bronchial
40	chr2:153477800-153486200	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr2:153477800-153488000	Weak transcription	Duodenum Mucosa	Duodenum
42	chr2:153477800-153488200	Weak transcription	Pancreas	Pancrea
43	chr2:153477800-153488400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr2:153477800-153488400	Weak transcription	Colon Smooth Muscle	Colon
45	chr2:153477800-153493800	Weak transcription	HSMMtube	muscle
46	chr2:153477800-153496000	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr2:153477800-153496600	Weak transcription	Aorta	Aorta
48	chr2:153478000-153484600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr2:153478000-153484600	Weak transcription	HUVEC	blood vessel
50	chr2:153478200-153484600	Weak transcription	H9 Cell Line	embryonic stem cell

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