Variant report

Variant	rs9400624
Chromosome Location	chr6:113727509-113727510
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1009404	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10872098	0.85[ASN][1000 genomes]
rs11153416	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1883171	0.83[ASN][1000 genomes]
rs2049923	0.85[ASN][1000 genomes]
rs2142639	0.85[ASN][1000 genomes]
rs2348293	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2348294	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2348295	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2348302	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2881870	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4945495	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4945496	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6568788	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6568789	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6568790	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6568793	0.85[ASN][1000 genomes]
rs6903091	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6903628	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6908767	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6915133	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6915622	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6926220	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs718459	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs718460	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7341217	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7738052	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7739755	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7768104	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs909541	1.00[CHB][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9285411	0.85[ASN][1000 genomes]
rs9320446	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9320450	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9320459	0.85[ASN][1000 genomes]
rs9374397	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9374399	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9374401	0.85[ASN][1000 genomes]
rs9387145	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9481369	0.85[ASN][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	nsv916294	chr6:113518489-113904305	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv830778	chr6:113662011-113729804	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1034256	chr6:113703567-113793790	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1021815	chr6:113703567-113799956	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9400624	ROS1	cis	parietal	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:113725200-113727800	Enhancers	Fetal Stomach	stomach
2	chr6:113726000-113727800	Enhancers	Stomach Mucosa	stomach
3	chr6:113726200-113728200	Enhancers	NHDF-Ad	bronchial
4	chr6:113726200-113736800	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:113726400-113727600	Enhancers	Adipose Nuclei	Adipose
6	chr6:113726400-113728000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:113726800-113727600	Enhancers	Ovary	ovary
8	chr6:113726800-113728200	Enhancers	NHLF	lung
9	chr6:113727200-113727800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr6:113727200-113727800	Enhancers	Fetal Kidney	kidney
11	chr6:113727200-113728000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr6:113727200-113728000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:113727400-113727600	Enhancers	Right Atrium	heart
14	chr6:113727400-113727800	Enhancers	Esophagus	oesophagus
15	chr6:113727400-113727800	Enhancers	Placenta	Placenta
16	chr6:113727400-113727800	Enhancers	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links