Variant report

Variant	rs6005735
Chromosome Location	chr22:28579487-28579488
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs12157518	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.95[ASN][1000 genomes]
rs12160232	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16986103	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16986290	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16986377	0.90[ASN][1000 genomes]
rs2345714	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28462248	0.93[ASN][1000 genomes]
rs55961693	0.93[ASN][1000 genomes]
rs5997341	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs5997355	0.85[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs5997363	0.86[ASN][1000 genomes]
rs5997365	0.90[ASN][1000 genomes]
rs5997367	0.90[ASN][1000 genomes]
rs6005697	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6005724	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6005726	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6005733	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6005751	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6005757	0.89[JPT][hapmap];0.90[ASN][1000 genomes]
rs6005758	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6005765	0.95[ASN][1000 genomes]
rs6005779	0.88[ASN][1000 genomes]
rs73427747	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73428082	0.90[ASN][1000 genomes]
rs7510988	1.00[CEU][hapmap];0.85[CHB][hapmap];0.89[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062877	chr22:28163507-28866350	Weak transcription Enhancers Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv459866	chr22:28540492-28753833	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv588879	chr22:28540492-28753833	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:28570000-28581000	Weak transcription	Fetal Intestine Small	intestine
2	chr22:28572200-28597800	Weak transcription	Dnd41	blood
3	chr22:28576600-28579600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr22:28577000-28603600	Weak transcription	Aorta	Aorta
5	chr22:28577400-28580200	Enhancers	Adipose Nuclei	Adipose
6	chr22:28577400-28584600	Weak transcription	Fetal Brain Female	brain
7	chr22:28577600-28579600	Enhancers	Small Intestine	intestine
8	chr22:28577800-28600400	Weak transcription	Right Atrium	heart
9	chr22:28578000-28583200	Weak transcription	Fetal Brain Male	brain
10	chr22:28578400-28580200	Enhancers	Fetal Heart	heart
11	chr22:28578400-28583600	Weak transcription	Fetal Muscle Leg	muscle
12	chr22:28578400-28583800	Weak transcription	Rectal Smooth Muscle	rectum
13	chr22:28578600-28579800	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr22:28578800-28580200	Enhancers	Fetal Lung	lung
15	chr22:28579000-28579600	Enhancers	Left Ventricle	heart
16	chr22:28579200-28579600	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr22:28579200-28579600	Enhancers	Lung	lung
18	chr22:28579200-28579600	Enhancers	Ovary	ovary
19	chr22:28579200-28579600	Enhancers	Pancreas	Pancrea
20	chr22:28579200-28579600	Enhancers	Psoas Muscle	Psoas
21	chr22:28579200-28579600	Enhancers	Right Ventricle	heart
22	chr22:28579200-28579600	Enhancers	Skeletal Muscle Male	skeletal muscle
23	chr22:28579200-28579800	Enhancers	Brain Germinal Matrix	brain
24	chr22:28579200-28581800	Enhancers	Duodenum Mucosa	Duodenum
25	chr22:28579400-28579600	Enhancers	Pancreatic Islets	Pancreatic Islet
26	chr22:28579400-28580200	Enhancers	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links