Variant report

Variant	rs6861179
Chromosome Location	chr5:17342482-17342483
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs13178605	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs298552	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs298553	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4701683	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4701684	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4701685	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4702207	0.89[CEU][hapmap];0.84[CHD][hapmap];0.83[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4702208	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6554994	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6554995	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6554996	0.88[CEU][hapmap];0.84[CHD][hapmap];0.84[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6554997	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6554998	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6887129	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6892106	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7704923	0.80[CEU][hapmap]
rs7705848	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7706156	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7715898	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7727410	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7733712	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][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	nsv1029959	chr5:17133214-17455995	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
2	nsv461988	chr5:17296342-17484038	Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	nsv597313	chr5:17296342-17484038	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
4	nsv830219	chr5:17325802-17518914	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
5	esv2763872	chr5:17342482-17358269	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:17339400-17343800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr5:17340000-17343600	Enhancers	A549	lung
3	chr5:17340600-17343000	Enhancers	Hela-S3	cervix
4	chr5:17340800-17343800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr5:17341200-17343600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr5:17341200-17343800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr5:17341400-17343600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr5:17341400-17343600	Weak transcription	Stomach Mucosa	stomach
9	chr5:17341400-17343600	Weak transcription	HUVEC	blood vessel
10	chr5:17341400-17343600	Weak transcription	Osteobl	bone
11	chr5:17341800-17343800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr5:17342000-17343600	Weak transcription	Aorta	Aorta
13	chr5:17342000-17343800	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links