Variant report

Variant	rs542665
Chromosome Location	chr11:59899221-59899222
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs1286182	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1294440	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1303617	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1303618	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1303619	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1303620	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1303622	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1315507	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1441585	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2243987	0.96[EUR][1000 genomes]
rs2433240	0.92[EUR][1000 genomes]
rs2847662	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs474888	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs475494	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs475812	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs477352	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs485682	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs489297	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs500886	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs500888	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs512548	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs512555	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs519743	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs523806	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs524755	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs524995	0.96[EUR][1000 genomes]
rs528421	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs535413	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs541468	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs546840	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs548515	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs549633	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs562442	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs562637	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs569108	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs571582	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs572084	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs573305	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs574060	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs574700	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs575103	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs575930	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs576295	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs576483	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs576616	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs578269	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs587634	0.96[EUR][1000 genomes]
rs588448	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs590532	0.96[EUR][1000 genomes]
rs592496	0.96[EUR][1000 genomes]
rs596788	0.96[EUR][1000 genomes]
rs597982	0.96[EUR][1000 genomes]
rs598862	0.96[EUR][1000 genomes]
rs600194	0.96[EUR][1000 genomes]
rs605820	0.96[EUR][1000 genomes]
rs60849043	1.00[ASN][1000 genomes]
rs620368	0.96[EUR][1000 genomes]
rs624233	0.96[EUR][1000 genomes]
rs625025	0.96[EUR][1000 genomes]
rs638872	0.96[EUR][1000 genomes]
rs641051	0.88[EUR][1000 genomes]
rs642426	0.96[EUR][1000 genomes]
rs646924	0.96[EUR][1000 genomes]
rs653285	0.96[EUR][1000 genomes]
rs654443	0.85[EUR][1000 genomes]
rs670925	0.96[EUR][1000 genomes]
rs675316	0.96[EUR][1000 genomes]
rs682025	0.96[EUR][1000 genomes]
rs682739	0.96[EUR][1000 genomes]
rs684977	0.96[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	nsv832173	chr11:59788884-59940560	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv468579	chr11:59814287-59975400	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv555150	chr11:59814287-59975400	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv976467	chr11:59898261-59911928	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:59893800-59899400	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr11:59895400-59907400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr11:59898400-59900200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr11:59899200-59899400	Enhancers	Ovary	ovary
5	chr11:59899200-59900400	Enhancers	Fetal Intestine Large	intestine
6	chr11:59899200-59900400	Enhancers	Fetal Intestine Small	intestine

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