Variant report

Variant	rs2096408
Chromosome Location	chr6:161321521-161321522
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs11751714	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11751813	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11752957	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11754459	0.85[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11755099	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11758427	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11759366	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11963931	1.00[JPT][hapmap]
rs13194157	1.00[JPT][hapmap]
rs1464779	1.00[JPT][hapmap]
rs1464780	1.00[JPT][hapmap]
rs1562026	1.00[JPT][hapmap]
rs1982291	1.00[JPT][hapmap]
rs2275925	1.00[JPT][hapmap]
rs2275926	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2872613	1.00[JPT][hapmap]
rs4472323	1.00[JPT][hapmap]
rs4709486	1.00[JPT][hapmap]
rs4709490	1.00[JPT][hapmap]
rs56160793	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs615269	1.00[JPT][hapmap]
rs619393	1.00[JPT][hapmap]
rs6455701	1.00[JPT][hapmap]
rs6905942	1.00[JPT][hapmap]
rs6913706	1.00[JPT][hapmap]
rs6914092	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6925502	1.00[JPT][hapmap]
rs6925800	1.00[JPT][hapmap]
rs6929462	1.00[JPT][hapmap]
rs6933810	1.00[JPT][hapmap]
rs705829	1.00[JPT][hapmap]
rs73017783	1.00[ASN][1000 genomes]
rs73017797	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73019757	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73019758	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73019760	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73019762	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73019772	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73019780	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73019797	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73021743	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7738762	1.00[JPT][hapmap]
rs7753585	1.00[JPT][hapmap]
rs7760056	1.00[JPT][hapmap]
rs9355332	1.00[JPT][hapmap]
rs9355867	1.00[JPT][hapmap]
rs9364585	1.00[JPT][hapmap]
rs9364586	1.00[JPT][hapmap]
rs9365248	1.00[JPT][hapmap]

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	esv3352911	chr6:161140543-161324358	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv830853	chr6:161180005-161376481	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv2422347	chr6:161211171-161442377	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161319600-161322400	Enhancers	Fetal Intestine Large	intestine
2	chr6:161320000-161322000	Enhancers	Fetal Intestine Small	intestine
3	chr6:161320600-161321600	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr6:161320600-161321600	Enhancers	iPS-18 Cell Line	embryonic stem cell
5	chr6:161320600-161322200	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr6:161320800-161321600	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr6:161320800-161321800	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr6:161320800-161321800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:161321000-161321600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr6:161321000-161321800	Enhancers	H1 Cell Line	embryonic stem cell
11	chr6:161321000-161321800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr6:161321000-161322000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:161321000-161322000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr6:161321200-161321800	Enhancers	Stomach Mucosa	stomach
15	chr6:161321200-161336600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:161321400-161321800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:161321400-161321800	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr6:161321400-161321800	Enhancers	Duodenum Mucosa	Duodenum
19	chr6:161321400-161323800	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr6:161321400-161324200	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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