Variant report

Variant	rs1872202
Chromosome Location	chr2:179668850-179668851
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10497522	0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10497524	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];1.00[ASN][1000 genomes]
rs10497525	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11887915	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11892354	0.94[ASN][1000 genomes]
rs11897386	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11904138	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12693168	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1552280	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1905521	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2029396	1.00[EUR][1000 genomes]
rs2035496	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2046778	0.90[CHB][hapmap]
rs2054706	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2054707	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2291301	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2291302	0.91[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2291303	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2306637	0.82[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3754949	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.80[MKK][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3754950	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3769859	0.90[CHB][hapmap];0.93[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3769861	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3769862	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3816781	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4894049	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58025762	1.00[EUR][1000 genomes]
rs58152091	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60305852	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61680869	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs719201	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73040366	0.83[EUR][1000 genomes]
rs73973151	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834470	chr2:179555152-179728726	Active TSS Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv934108	chr2:179556852-179729925	Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:179533600-179669200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr2:179610800-179671400	Weak transcription	Ovary	ovary
3	chr2:179639000-179672000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr2:179639400-179671400	Weak transcription	Gastric	stomach
5	chr2:179646000-179684800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr2:179647800-179672000	Weak transcription	Fetal Thymus	thymus
7	chr2:179655800-179670800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr2:179656800-179674400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr2:179659200-179671400	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr2:179659400-179698000	Weak transcription	Primary B cells from cord blood	blood
11	chr2:179659800-179671200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr2:179660000-179669200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr2:179662400-179669600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr2:179663200-179669400	Weak transcription	Fetal Intestine Large	intestine
15	chr2:179663800-179669800	Strong transcription	Primary T cells from cord blood	blood
16	chr2:179663800-179671200	Transcr. at gene 5' and 3'	Skeletal Muscle Female	skeletal muscle
17	chr2:179664200-179669600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr2:179664600-179672000	Weak transcription	Thymus	Thymus
19	chr2:179664800-179670000	Transcr. at gene 5' and 3'	Skeletal Muscle Male	skeletal muscle
20	chr2:179664800-179673000	Active TSS	Right Atrium	heart
21	chr2:179666800-179684800	Weak transcription	Primary T helper cells fromperipheralblood	blood
22	chr2:179667200-179673000	Active TSS	Right Ventricle	heart
23	chr2:179667400-179669200	Active TSS	Fetal Muscle Trunk	muscle
24	chr2:179667600-179669200	Weak transcription	HSMM	muscle
25	chr2:179668400-179673000	ZNF genes & repeats	Fetal Heart	heart
26	chr2:179668800-179669000	Flanking Active TSS	Psoas Muscle	Psoas
27	chr2:179668800-179669000	Genic enhancers	HSMMtube	muscle
28	chr2:179668800-179669400	Active TSS	Aorta	Aorta
29	chr2:179668800-179669600	Genic enhancers	Pancreas	Pancrea
30	chr2:179668800-179669800	Transcr. at gene 5' and 3'	Fetal Muscle Leg	muscle
31	chr2:179668800-179670000	Transcr. at gene 5' and 3'	Left Ventricle	heart

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