Variant report

Variant	rs12244490
Chromosome Location	chr10:98588223-98588224
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 100 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs10437452	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188929	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188937	0.96[EUR][1000 genomes]
rs11188939	0.95[EUR][1000 genomes]
rs11188940	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11188947	0.96[EUR][1000 genomes]
rs11188954	0.89[EUR][1000 genomes]
rs11188955	0.89[EUR][1000 genomes]
rs11188956	0.89[EUR][1000 genomes]
rs11188959	0.89[EUR][1000 genomes]
rs11188967	0.89[EUR][1000 genomes]
rs11188971	0.86[EUR][1000 genomes]
rs11188978	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11188999	1.00[ASN][1000 genomes]
rs12240946	1.00[ASN][1000 genomes]
rs12241405	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12241564	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12242330	0.95[EUR][1000 genomes]
rs12243551	0.91[EUR][1000 genomes]
rs12246067	0.96[EUR][1000 genomes]
rs12247344	0.93[EUR][1000 genomes]
rs12248349	1.00[ASN][1000 genomes]
rs12249381	0.89[EUR][1000 genomes]
rs12249427	0.89[EUR][1000 genomes]
rs12249891	0.96[EUR][1000 genomes]
rs12250548	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12252424	0.89[EUR][1000 genomes]
rs12252435	0.96[EUR][1000 genomes]
rs12254525	1.00[ASN][1000 genomes]
rs12256424	0.96[EUR][1000 genomes]
rs12257413	0.89[EUR][1000 genomes]
rs12258355	0.89[EUR][1000 genomes]
rs12258469	0.89[EUR][1000 genomes]
rs12259265	0.96[EUR][1000 genomes]
rs12261278	0.96[EUR][1000 genomes]
rs12261881	0.96[EUR][1000 genomes]
rs12262784	0.96[EUR][1000 genomes]
rs12263331	0.89[EUR][1000 genomes]
rs12264014	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12264950	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12265242	0.89[EUR][1000 genomes]
rs12265606	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12266068	0.96[EUR][1000 genomes]
rs12266185	0.96[EUR][1000 genomes]
rs12267926	0.96[EUR][1000 genomes]
rs12268216	0.89[EUR][1000 genomes]
rs12268272	0.88[EUR][1000 genomes]
rs13376965	0.89[EUR][1000 genomes]
rs17112175	0.93[EUR][1000 genomes]
rs17112190	0.89[EUR][1000 genomes]
rs2104785	0.96[EUR][1000 genomes]
rs2183449	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28439735	0.89[EUR][1000 genomes]
rs28505353	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28758432	0.89[EUR][1000 genomes]
rs4394767	0.84[EUR][1000 genomes]
rs56867696	0.89[EUR][1000 genomes]
rs57501540	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57716318	0.96[EUR][1000 genomes]
rs58270704	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58376960	0.95[EUR][1000 genomes]
rs58409956	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59751908	0.95[EUR][1000 genomes]
rs59938221	0.93[EUR][1000 genomes]
rs59999388	0.89[EUR][1000 genomes]
rs60576681	0.89[EUR][1000 genomes]
rs61492214	0.89[EUR][1000 genomes]
rs6584101	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7071211	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7072273	0.89[EUR][1000 genomes]
rs7073150	1.00[ASN][1000 genomes]
rs7081197	1.00[ASN][1000 genomes]
rs7082316	0.89[EUR][1000 genomes]
rs7082838	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7085822	0.89[EUR][1000 genomes]
rs7085851	0.89[EUR][1000 genomes]
rs7086875	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7090441	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7090690	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7090880	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73318637	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73318641	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73320607	1.00[ASN][1000 genomes]
rs74153734	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7893325	1.00[ASN][1000 genomes]
rs7893564	0.93[EUR][1000 genomes]
rs7894138	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7894418	0.96[EUR][1000 genomes]
rs7895914	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7906294	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7910221	0.96[EUR][1000 genomes]
rs7918085	0.96[EUR][1000 genomes]
rs7920238	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7921193	0.96[EUR][1000 genomes]
rs7921216	0.96[EUR][1000 genomes]
rs7921885	0.89[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	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv895910	chr10:98386483-98640994	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	21 gene(s)	inside rSNPs	diseases
3	nsv1053801	chr10:98506832-98610101	Flanking Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
4	nsv825532	chr10:98567434-98618034	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98585800-98588600	Enhancers	K562	blood
2	chr10:98586000-98590200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr10:98586600-98588800	Weak transcription	Fetal Intestine Large	intestine
4	chr10:98586600-98588800	Weak transcription	Fetal Intestine Small	intestine
5	chr10:98586800-98590400	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr10:98587000-98590000	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr10:98587200-98591400	Weak transcription	Left Ventricle	heart
8	chr10:98587400-98589000	Weak transcription	HepG2	liver
9	chr10:98588200-98591000	Enhancers	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links