Variant report

Variant	rs7794170
Chromosome Location	chr7:99776886-99776887
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1043915	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1061230	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs10953295	0.87[CHB][hapmap]
rs1138417	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs11764176	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs11771139	0.82[CEU][hapmap]
rs12666425	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap]
rs12705073	0.86[CHB][hapmap]
rs13230744	1.00[CEU][hapmap];0.96[YRI][hapmap]
rs1617502	0.87[CEU][hapmap];0.82[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap]
rs1623264	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap]
rs1624099	0.86[CHB][hapmap]
rs1636975	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1637001	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs1727128	0.91[CHB][hapmap];1.00[YRI][hapmap]
rs1727133	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1727134	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1727138	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1727140	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1880949	0.83[CEU][hapmap]
rs2141160	1.00[CEU][hapmap]
rs2246713	0.87[CHB][hapmap]
rs2272345	1.00[CEU][hapmap]
rs2405442	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs2528900	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap]
rs2906646	0.86[CHB][hapmap];1.00[YRI][hapmap]
rs2950518	0.86[CHB][hapmap]
rs2950520	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs35146811	0.83[CEU][hapmap]
rs3735241	0.86[CHB][hapmap];1.00[YRI][hapmap]
rs3735242	0.86[CHB][hapmap]
rs3779045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6948729	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs705867	0.86[CHB][hapmap]
rs7811662	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap]
rs858506	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs858513	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs866500	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs941287	0.86[CHB][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534298	chr7:99478011-99886076	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1132 gene(s)	inside rSNPs	diseases
2	nsv607931	chr7:99664817-99796146	Bivalent Enhancer Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1097 gene(s)	inside rSNPs	diseases
3	esv1798486	chr7:99689883-99930879	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1085 gene(s)	inside rSNPs	diseases
4	esv1833059	chr7:99689883-99930879	Flanking Active TSS Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1085 gene(s)	inside rSNPs	diseases
5	esv3350965	chr7:99747460-100146105	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	304 gene(s)	inside rSNPs	diseases
6	nsv427794	chr7:99750981-99960900	Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
7	nsv428180	chr7:99750981-99960900	Weak transcription Enhancers Bivalent/Poised TSS Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
8	nsv5867	chr7:99766774-99799755	Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7794170	GATS	cis	multi-tissue	Pritchard

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:99775000-99778200	Weak transcription	K562	blood
2	chr7:99775000-99780600	Enhancers	Primary T cells from cord blood	blood
3	chr7:99775400-99777000	Enhancers	Primary T killer memory cells from peripheral blood	blood
4	chr7:99775800-99778000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr7:99775800-99778000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr7:99775800-99778000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr7:99775800-99779400	Enhancers	Primary T cells fromperipheralblood	blood
8	chr7:99775800-99787600	Weak transcription	GM12878-XiMat	blood
9	chr7:99775800-99798000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr7:99776000-99777200	Weak transcription	Dnd41	blood
11	chr7:99776000-99777600	Weak transcription	Thymus	Thymus
12	chr7:99776000-99778000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr7:99776000-99778000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr7:99776000-99778000	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr7:99776000-99778200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr7:99776000-99780400	Enhancers	Fetal Thymus	thymus
17	chr7:99776200-99777800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr7:99776400-99777400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
19	chr7:99776400-99778600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
20	chr7:99776600-99778200	Weak transcription	Primary B cells from peripheral blood	blood
21	chr7:99776800-99777800	Weak transcription	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links