Variant report

Variant	rs9402493
Chromosome Location	chr6:133570945-133570946
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10872402	0.87[EUR][1000 genomes]
rs12190309	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12192839	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12193038	0.95[CEU][hapmap];0.87[EUR][1000 genomes]
rs12193158	0.95[CEU][hapmap];0.87[EUR][1000 genomes]
rs12202540	0.87[EUR][1000 genomes]
rs12204996	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12206438	0.95[CEU][hapmap];0.87[EUR][1000 genomes]
rs1415858	0.95[CEU][hapmap];0.91[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17301249	0.87[CHD][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap]
rs2180729	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28620929	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3756869	0.95[CEU][hapmap];0.90[CHB][hapmap];0.84[JPT][hapmap];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3756871	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3756872	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3777785	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3777796	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3777799	0.90[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55947866	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56377439	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62430275	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6569873	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6569874	0.81[ASN][1000 genomes]
rs6912995	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6927143	0.87[ASN][1000 genomes]
rs6940510	0.87[ASN][1000 genomes]
rs7746298	0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7750376	0.84[CEU][hapmap]
rs7754501	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9321393	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9373038	0.87[EUR][1000 genomes]
rs9373041	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9373043	0.81[CHB][hapmap];0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs9373045	0.81[TSI][hapmap]
rs9373046	0.86[CHD][hapmap];0.83[MEX][hapmap];0.80[TSI][hapmap]
rs9375942	0.87[EUR][1000 genomes]
rs9375943	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9375948	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9375949	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9375955	0.81[CHD][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap]
rs9385640	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9385641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9385642	0.81[ASN][1000 genomes]
rs9389052	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9389059	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9389060	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9389061	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9389062	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9399053	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9399054	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9399055	0.82[ASN][1000 genomes]
rs9402487	0.87[EUR][1000 genomes]
rs9402489	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9402494	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9402497	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9402498	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9483560	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758080	chr6:133444719-133627364	Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv2759470	chr6:133444719-133627364	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv470862	chr6:133492507-133600402	Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv886678	chr6:133550279-133631190	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv5483	chr6:133554303-133599338	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9402493	HBS1L	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133567000-133571200	Enhancers	A549	lung
2	chr6:133567400-133583600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr6:133570000-133571000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:133570600-133571400	Enhancers	Skeletal Muscle Female	skeletal muscle
5	chr6:133570800-133571400	Enhancers	Psoas Muscle	Psoas
6	chr6:133570800-133571400	Enhancers	Hela-S3	cervix
7	chr6:133570800-133574200	Weak transcription	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links