Variant report

Variant	rs3769862
Chromosome Location	chr2:179666013-179666014
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:179662340..179664242-chr2:179665023..179667760,3	K562	blood:

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[JPT][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	0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11904138	1.00[CHB][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];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1872202	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]
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];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];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2291303	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2306637	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3754949	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3754950	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3769859	0.91[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]
rs3816781	1.00[CHB][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];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:40 , 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	chr2:179629600-179666200	Weak transcription	GM12878-XiMat	blood
4	chr2:179632400-179667800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr2:179639000-179672000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr2:179639400-179671400	Weak transcription	Gastric	stomach
7	chr2:179646000-179684800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr2:179647800-179672000	Weak transcription	Fetal Thymus	thymus
9	chr2:179648400-179667200	Weak transcription	HSMM	muscle
10	chr2:179655800-179670800	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr2:179656200-179666200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr2:179656200-179668400	Weak transcription	Fetal Intestine Small	intestine
13	chr2:179656400-179667600	Weak transcription	Adipose Nuclei	Adipose
14	chr2:179656800-179674400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr2:179657800-179668800	Weak transcription	Aorta	Aorta
16	chr2:179658200-179666800	Weak transcription	Psoas Muscle	Psoas
17	chr2:179659200-179671400	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr2:179659400-179698000	Weak transcription	Primary B cells from cord blood	blood
19	chr2:179659800-179671200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr2:179660000-179669200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr2:179662400-179669600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr2:179663200-179669400	Weak transcription	Fetal Intestine Large	intestine
23	chr2:179663800-179666800	Strong transcription	Primary T helper cells fromperipheralblood	blood
24	chr2:179663800-179668600	Strong transcription	HSMMtube	muscle
25	chr2:179663800-179669800	Strong transcription	Primary T cells from cord blood	blood
26	chr2:179663800-179671200	Transcr. at gene 5' and 3'	Skeletal Muscle Female	skeletal muscle
27	chr2:179664200-179669600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr2:179664600-179672000	Weak transcription	Thymus	Thymus
29	chr2:179664800-179670000	Transcr. at gene 5' and 3'	Skeletal Muscle Male	skeletal muscle
30	chr2:179664800-179673000	Active TSS	Right Atrium	heart
31	chr2:179665400-179666400	Weak transcription	Right Ventricle	heart
32	chr2:179665400-179666800	Weak transcription	Left Ventricle	heart
33	chr2:179665400-179666800	Weak transcription	Pancreas	Pancrea
34	chr2:179665400-179668800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr2:179665600-179666200	Weak transcription	Fetal Muscle Leg	muscle
36	chr2:179665600-179666600	Weak transcription	Fetal Muscle Trunk	muscle
37	chr2:179665600-179667200	Weak transcription	Primary T helper cells PMA-I stimulated	--
38	chr2:179665600-179668400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr2:179665600-179668600	Weak transcription	Primary B cells from peripheral blood	blood
40	chr2:179666000-179668200	Transcr. at gene 5' and 3'	Fetal Heart	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links