Variant report

Variant	rs9401040
Chromosome Location	chr6:118314572-118314573
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10457323	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10457324	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10499084	1.00[CEU][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10872160	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10872161	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11153710	0.83[JPT][hapmap]
rs11153713	0.81[CHB][hapmap]
rs11754631	1.00[JPT][hapmap]
rs12199369	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12206792	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12207545	0.87[CHB][hapmap]
rs12212649	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12212953	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12214395	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1338968	0.82[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1338974	0.86[JPT][hapmap]
rs1338975	0.84[ASN][1000 genomes]
rs1416416	0.93[CEU][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1416417	0.83[JPT][hapmap]
rs1416418	0.84[ASN][1000 genomes]
rs1416419	0.93[CEU][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1416420	0.93[CEU][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1416421	0.93[CEU][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1416422	0.93[CEU][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1570447	0.93[CEU][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1998458	0.93[CEU][hapmap];0.82[JPT][hapmap]
rs2211098	0.92[CEU][hapmap]
rs2355792	0.84[ASN][1000 genomes]
rs2760240	0.86[CEU][hapmap]
rs2789010	0.93[CEU][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2789013	0.93[CEU][hapmap]
rs4283912	0.82[CHB][hapmap]
rs4946304	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6568991	0.93[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6903073	0.93[CEU][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6937496	0.82[EUR][1000 genomes]
rs7738597	0.94[JPT][hapmap]
rs7775647	0.93[CEU][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs912088	0.86[CEU][hapmap]
rs9320624	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9320634	0.82[CHB][hapmap]
rs9372488	1.00[CEU][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap];0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9372494	0.82[CHB][hapmap]
rs9374691	0.93[CEU][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9385027	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9385028	0.82[CHB][hapmap];0.82[JPT][hapmap];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9387531	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9387535	0.93[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9387547	0.81[CHB][hapmap]
rs9398468	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9398476	0.87[CHB][hapmap]
rs9401044	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9401046	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9401051	0.81[CHB][hapmap]
rs9481757	0.84[ASN][1000 genomes]
rs9489295	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530526	chr6:118027339-118718476	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:118305600-118315400	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr6:118309200-118315200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr6:118310000-118315200	Enhancers	Brain Hippocampus Middle	brain
4	chr6:118311400-118315000	Enhancers	Brain Angular Gyrus	brain
5	chr6:118313400-118314800	Enhancers	Brain Cingulate Gyrus	brain
6	chr6:118313600-118315200	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr6:118313600-118315400	Enhancers	Brain Germinal Matrix	brain
8	chr6:118313600-118315600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr6:118313600-118315600	Enhancers	Brain Anterior Caudate	brain
10	chr6:118314000-118315200	Enhancers	Brain Substantia Nigra	brain
11	chr6:118314400-118314800	Weak transcription	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links