Variant report

Variant	rs2296194
Chromosome Location	chr6:35058667-35058668
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1034449	1.00[MKK][hapmap];1.00[YRI][hapmap]
rs16872324	1.00[CEU][hapmap];0.80[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16872484	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2057537	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2267660	0.89[MEX][hapmap];1.00[TSI][hapmap]
rs3756855	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3800383	1.00[ASW][hapmap];0.82[LWK][hapmap];0.89[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs3800386	1.00[ASW][hapmap];0.82[LWK][hapmap];0.89[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs3800387	1.00[ASW][hapmap];0.82[LWK][hapmap];0.89[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs3800388	1.00[ASW][hapmap];0.82[LWK][hapmap];0.89[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs6457803	1.00[CEU][hapmap];0.80[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6908059	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6940278	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73745098	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73745102	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9348962	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs9348965	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9348966	1.00[CEU][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9357194	1.00[CEU][hapmap];0.81[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9368854	1.00[ASW][hapmap];0.82[LWK][hapmap];0.89[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs9380488	1.00[CEU][hapmap];0.85[CHB][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9380489	1.00[YRI][hapmap]
rs9380491	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9380492	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9380493	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs960716	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[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	nsv1022844	chr6:34317219-35060519	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv538195	chr6:34317219-35060519	Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	nsv869750	chr6:35031548-35085585	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35018800-35060600	Strong transcription	Primary neutrophils fromperipheralblood	blood
2	chr6:35020000-35059800	Strong transcription	Fetal Intestine Small	intestine
3	chr6:35020400-35059400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr6:35024800-35062000	Weak transcription	A549	lung
5	chr6:35026600-35059200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr6:35028600-35060000	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr6:35036200-35059200	Strong transcription	Primary T cells from cord blood	blood
8	chr6:35037000-35061800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr6:35039400-35060600	Strong transcription	Fetal Intestine Large	intestine
10	chr6:35042200-35059200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:35044400-35058800	Strong transcription	Duodenum Mucosa	Duodenum
12	chr6:35044800-35058800	Strong transcription	Gastric	stomach
13	chr6:35044800-35059000	Strong transcription	Left Ventricle	heart
14	chr6:35045000-35059000	Strong transcription	Pancreas	Pancrea
15	chr6:35045200-35059400	Strong transcription	Thymus	Thymus
16	chr6:35049600-35058800	Strong transcription	Placenta Amnion	Placenta Amnion
17	chr6:35049600-35060200	Weak transcription	Psoas Muscle	Psoas
18	chr6:35050000-35059800	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr6:35050000-35063800	Weak transcription	HUVEC	blood vessel
20	chr6:35050200-35059600	Strong transcription	Primary monocytes fromperipheralblood	blood
21	chr6:35050600-35058800	Strong transcription	HUES6 Cell Line	embryonic stem cell
22	chr6:35050600-35060200	Weak transcription	Right Atrium	heart
23	chr6:35051400-35061400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:35051800-35064000	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr6:35052400-35059200	Strong transcription	Brain Cingulate Gyrus	brain
26	chr6:35052800-35060000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr6:35053400-35060200	Weak transcription	Fetal Kidney	kidney
28	chr6:35053400-35064200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr6:35054000-35060000	Genic enhancers	Placenta	Placenta
30	chr6:35054000-35063800	Weak transcription	Stomach Mucosa	stomach
31	chr6:35054200-35059200	Genic enhancers	Stomach Smooth Muscle	stomach
32	chr6:35054600-35059000	Strong transcription	HUES64 Cell Line	embryonic stem cell
33	chr6:35055000-35064000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr6:35055200-35059800	Genic enhancers	Adipose Nuclei	Adipose
35	chr6:35055400-35060600	Genic enhancers	Fetal Muscle Trunk	muscle
36	chr6:35055600-35059000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr6:35055600-35061000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr6:35055800-35059400	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr6:35055800-35061000	Weak transcription	Primary B cells from cord blood	blood
40	chr6:35055800-35064000	Weak transcription	NHEK	skin
41	chr6:35056000-35059400	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr6:35056000-35061600	Weak transcription	Small Intestine	intestine
43	chr6:35056200-35061000	Genic enhancers	Fetal Stomach	stomach
44	chr6:35056200-35061000	Enhancers	HMEC	breast
45	chr6:35056200-35061800	Enhancers	Breast Myoepithelial Primary Cells	Breast
46	chr6:35056400-35059400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr6:35056400-35061400	Weak transcription	Hela-S3	cervix
48	chr6:35056600-35059000	Weak transcription	Fetal Thymus	thymus
49	chr6:35056600-35059400	Strong transcription	Lung	lung
50	chr6:35056600-35059800	Genic enhancers	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links