Variant report

Variant	rs1934790
Chromosome Location	chr6:54128693-54128694
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10447407	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10456680	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10484644	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10948805	0.99[EUR][1000 genomes]
rs10948810	0.93[CEU][hapmap]
rs1150873	1.00[CHB][hapmap]
rs12190132	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12194521	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12197347	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12198031	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12198070	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12201826	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206200	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12212689	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12212836	0.85[CEU][hapmap]
rs1298143	0.83[CEU][hapmap]
rs1417390	1.00[CHB][hapmap]
rs16885122	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2297980	0.85[CEU][hapmap]
rs2754813	1.00[CHB][hapmap]
rs2792644	1.00[CHB][hapmap]
rs60334573	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62396365	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6913087	1.00[EUR][1000 genomes]
rs6913138	1.00[EUR][1000 genomes]
rs6937514	0.86[CEU][hapmap]
rs73440541	0.87[AFR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7741347	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7746489	0.89[EUR][1000 genomes]
rs7755107	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7765626	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7773258	0.99[EUR][1000 genomes]
rs7774316	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs843827	1.00[CHB][hapmap]
rs9296744	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9296745	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296747	1.00[EUR][1000 genomes]
rs9349700	0.84[CEU][hapmap]
rs9357793	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs9357795	1.00[CEU][hapmap];0.95[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9367556	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9370276	0.86[CEU][hapmap]
rs9382311	0.85[CEU][hapmap]
rs9382318	0.89[EUR][1000 genomes]
rs9382319	0.89[EUR][1000 genomes]
rs9395920	0.85[CEU][hapmap]
rs9395924	0.97[EUR][1000 genomes]
rs9464048	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9885789	1.00[CEU][hapmap];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067663	chr6:53796341-54449718	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv529158	chr6:53796341-54449718	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1020961	chr6:54101801-54133709	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1020329	chr6:54103966-54129147	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54121400-54131200	Weak transcription	Left Ventricle	heart
2	chr6:54121400-54131400	Weak transcription	Psoas Muscle	Psoas
3	chr6:54121800-54131400	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr6:54122600-54129800	Weak transcription	Fetal Heart	heart
5	chr6:54124800-54129200	Enhancers	Fetal Intestine Large	intestine
6	chr6:54126000-54129200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:54126800-54129000	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr6:54127600-54129000	Enhancers	Fetal Intestine Small	intestine
9	chr6:54128000-54128800	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr6:54128600-54129800	Enhancers	Pancreatic Islets	Pancreatic Islet

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