Variant report

Variant	rs11162639
Chromosome Location	chr1:79593414-79593415
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10735754	1.00[EUR][1000 genomes]
rs10874008	1.00[EUR][1000 genomes]
rs10874019	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10874021	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11162602	1.00[EUR][1000 genomes]
rs11162641	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12057337	1.00[EUR][1000 genomes]
rs1487543	1.00[EUR][1000 genomes]
rs1487558	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1487559	1.00[EUR][1000 genomes]
rs1953083	1.00[EUR][1000 genomes]
rs228456	1.00[AMR][1000 genomes]
rs228459	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs228464	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs228548	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs228555	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs402398	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4415519	1.00[EUR][1000 genomes]
rs4650385	1.00[EUR][1000 genomes]
rs4650386	1.00[EUR][1000 genomes]
rs4650637	1.00[EUR][1000 genomes]
rs61769016	1.00[EUR][1000 genomes]
rs6424629	1.00[EUR][1000 genomes]
rs6424635	1.00[EUR][1000 genomes]
rs6424636	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6662620	1.00[EUR][1000 genomes]
rs6684178	1.00[EUR][1000 genomes]
rs6700121	1.00[EUR][1000 genomes]
rs7527791	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7546780	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491784	chr1:79146141-79853482	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv546619	chr1:79233493-79614989	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv546631	chr1:79518810-79614989	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv546632	chr1:79534138-79594157	Weak transcription Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv1009913	chr1:79540957-79616947	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1007013	chr1:79540957-79619725	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1005743	chr1:79540957-79621702	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv830326	chr1:79573379-79735667	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:79571200-79594600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr1:79589000-79601000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr1:79591000-79594400	Weak transcription	HUVEC	blood vessel
4	chr1:79593400-79593800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links