Variant report

Variant	rs17620822
Chromosome Location	chr4:149190257-149190258
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11730274	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11733930	0.82[CHB][hapmap]
rs11735947	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12512126	0.86[CHB][hapmap]
rs12640639	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12647354	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13103641	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13104051	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13105361	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13119790	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13137095	0.91[CHB][hapmap];0.87[JPT][hapmap];0.89[ASN][1000 genomes]
rs13138913	0.97[ASN][1000 genomes]
rs13147775	0.82[CHB][hapmap]
rs13148853	0.82[CHB][hapmap]
rs1429914	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17620775	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34279352	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35111299	0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs3846321	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3887856	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3910046	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4083100	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4087963	0.86[CHB][hapmap];0.84[CHD][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs66469272	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs67343083	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs765491	0.96[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	nsv1027263	chr4:149127120-149320135	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv537296	chr4:149127120-149320135	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1031815	chr4:149172485-149282928	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:149175600-149195000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:149177200-149194800	Weak transcription	Small Intestine	intestine
3	chr4:149180000-149194600	Weak transcription	Left Ventricle	heart
4	chr4:149181200-149194800	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr4:149182600-149194800	Weak transcription	Esophagus	oesophagus
6	chr4:149183000-149194800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr4:149184600-149194600	Weak transcription	Ovary	ovary
8	chr4:149186000-149194800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr4:149186200-149194800	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr4:149187400-149194800	Weak transcription	Brain Angular Gyrus	brain
11	chr4:149187800-149191600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr4:149187800-149194800	Weak transcription	Stomach Smooth Muscle	stomach
13	chr4:149188000-149194800	Weak transcription	Lung	lung
14	chr4:149188400-149193800	Weak transcription	Fetal Heart	heart
15	chr4:149188600-149194200	Weak transcription	Fetal Intestine Small	intestine
16	chr4:149188600-149194600	Weak transcription	Fetal Intestine Large	intestine
17	chr4:149188600-149194800	Weak transcription	Pancreas	Pancrea
18	chr4:149188600-149194800	Weak transcription	Right Atrium	heart
19	chr4:149189600-149190600	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr4:149189800-149190400	Enhancers	Placenta Amnion	Placenta Amnion
21	chr4:149190200-149190400	Enhancers	Brain Substantia Nigra	brain

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