Variant report

Variant	rs13147012
Chromosome Location	chr4:106580340-106580341
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10025790	0.93[CEU][hapmap];0.82[JPT][hapmap]
rs10032142	0.84[EUR][1000 genomes]
rs10032283	0.85[EUR][1000 genomes]
rs10034172	0.83[EUR][1000 genomes]
rs10516523	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.81[TSI][hapmap];0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11097895	0.84[EUR][1000 genomes]
rs11722731	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs11726715	0.89[EUR][1000 genomes]
rs11934139	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.83[TSI][hapmap];0.82[ASN][1000 genomes]
rs11941690	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.81[TSI][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12639750	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs1294670	0.82[ASN][1000 genomes]
rs1294673	0.82[ASN][1000 genomes]
rs13138544	0.86[CEU][hapmap];0.80[CHD][hapmap]
rs13148869	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.81[TSI][hapmap];0.82[ASN][1000 genomes]
rs1447093	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs1447094	0.86[CEU][hapmap]
rs1447098	0.84[EUR][1000 genomes]
rs1447099	0.84[EUR][1000 genomes]
rs1447100	0.84[EUR][1000 genomes]
rs1447101	0.84[EUR][1000 genomes]
rs17036041	0.84[EUR][1000 genomes]
rs17036049	0.84[EUR][1000 genomes]
rs17036098	0.87[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17262764	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.81[TSI][hapmap];0.85[ASN][1000 genomes]
rs2044536	0.93[CEU][hapmap];0.90[CHD][hapmap]
rs2080789	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs2544395	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.81[TSI][hapmap]
rs2544412	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.84[TSI][hapmap]
rs2553449	0.83[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap]
rs2553458	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.81[TSI][hapmap]
rs2553468	0.91[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.81[TSI][hapmap]
rs28415919	0.84[EUR][1000 genomes]
rs28628106	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3756260	0.85[ASN][1000 genomes]
rs4699196	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.81[TSI][hapmap];0.85[ASN][1000 genomes]
rs6533218	0.89[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.84[TSI][hapmap]
rs67822595	0.84[EUR][1000 genomes]
rs6820200	0.81[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7680134	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7684839	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs7685231	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7686722	0.89[EUR][1000 genomes]
rs7699846	0.83[EUR][1000 genomes]
rs9999133	0.84[EUR][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	nsv879699	chr4:106212562-106698892	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	esv3467298	chr4:106577722-106583287	Weak transcription Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
3	esv3467299	chr4:106577722-106583287	Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv14749	chr4:106577867-106583120	Enhancers Weak transcription Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106559400-106602800	Weak transcription	Duodenum Mucosa	Duodenum
2	chr4:106569800-106600400	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr4:106574400-106585400	Weak transcription	Rectal Smooth Muscle	rectum
4	chr4:106576600-106581400	Strong transcription	Fetal Intestine Large	intestine
5	chr4:106578200-106588200	Weak transcription	Pancreas	Pancrea
6	chr4:106578600-106607000	Weak transcription	Small Intestine	intestine
7	chr4:106579000-106580600	Enhancers	Stomach Mucosa	stomach
8	chr4:106580000-106580400	Strong transcription	Sigmoid Colon	Sigmoid Colon
9	chr4:106580200-106580400	Strong transcription	Fetal Intestine Small	intestine
10	chr4:106580200-106580600	Enhancers	Gastric	stomach
11	chr4:106580200-106580600	Strong transcription	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links