Variant report

Variant	rs17589766
Chromosome Location	chr5:58543332-58543333
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10461659	0.83[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs10805513	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12656944	0.88[EUR][1000 genomes]
rs12658429	0.91[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs17589633	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.91[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17589745	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs2061282	0.91[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2591651	1.00[TSI][hapmap]
rs27185	0.83[AFR][1000 genomes]
rs3891334	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.91[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6898269	0.91[CHB][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs72644095	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72644096	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72644097	0.93[ASN][1000 genomes]
rs72644098	0.93[ASN][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	esv2830363	chr5:57893949-58555491	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv598252	chr5:58487764-58618889	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1025807	chr5:58520050-58548231	Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv520721	chr5:58520735-58558388	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58527400-58549800	Weak transcription	Aorta	Aorta
2	chr5:58535600-58551800	Weak transcription	HUVEC	blood vessel
3	chr5:58537400-58543600	Weak transcription	Left Ventricle	heart
4	chr5:58537600-58548600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr5:58537600-58553000	Weak transcription	Duodenum Mucosa	Duodenum
6	chr5:58540800-58543800	Enhancers	Fetal Lung	lung
7	chr5:58541000-58543400	Enhancers	Osteobl	bone
8	chr5:58541000-58545400	Enhancers	Rectal Smooth Muscle	rectum
9	chr5:58541200-58558400	Weak transcription	Pancreas	Pancrea
10	chr5:58541600-58560000	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr5:58541600-58562400	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr5:58541800-58543400	Weak transcription	Fetal Intestine Small	intestine
13	chr5:58541800-58543400	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr5:58541800-58543600	Weak transcription	Psoas Muscle	Psoas
15	chr5:58541800-58543600	Weak transcription	Right Atrium	heart
16	chr5:58541800-58562800	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr5:58542200-58544400	Enhancers	Fetal Heart	heart
18	chr5:58542200-58551600	Weak transcription	Primary neutrophils fromperipheralblood	blood
19	chr5:58542600-58544400	Enhancers	Fetal Kidney	kidney
20	chr5:58542600-58544400	Genic enhancers	Hela-S3	cervix
21	chr5:58542600-58548600	Weak transcription	Stomach Smooth Muscle	stomach
22	chr5:58542800-58545200	Enhancers	Skeletal Muscle Female	skeletal muscle
23	chr5:58543000-58543400	Enhancers	Small Intestine	intestine
24	chr5:58543200-58543400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr5:58543200-58543600	Enhancers	Fetal Intestine Large	intestine
26	chr5:58543200-58544400	Weak transcription	Colon Smooth Muscle	Colon
27	chr5:58543200-58545800	Genic enhancers	A549	lung
28	chr5:58543200-58552400	Weak transcription	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links