Variant report

Variant	rs11174238
Chromosome Location	chr12:40303094-40303095
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:40301225..40304048-chr12:40312812..40315442,2	K562	blood:

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10747886	0.83[JPT][hapmap]
rs10747943	0.87[ASN][1000 genomes]
rs10784079	0.81[JPT][hapmap]
rs10784261	0.94[CHB][hapmap];0.86[ASN][1000 genomes]
rs10784274	1.00[CHB][hapmap];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10877733	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10877743	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10877768	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10877772	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs10877773	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs11174104	0.81[JPT][hapmap]
rs11174153	0.96[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11174235	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11174291	0.89[ASN][1000 genomes]
rs11612814	1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[ASN][1000 genomes]
rs11833368	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs1497050	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs1874560	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs2029972	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2404349	0.94[CHB][hapmap];0.89[ASN][1000 genomes]
rs4350423	0.81[JPT][hapmap]
rs4473002	0.81[JPT][hapmap]
rs4539398	0.81[JPT][hapmap]
rs4598727	0.81[JPT][hapmap]
rs4604958	0.82[JPT][hapmap]
rs4768188	0.81[JPT][hapmap]
rs57351062	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6581405	0.81[JPT][hapmap]
rs7133553	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs7134965	0.89[ASN][1000 genomes]
rs7135753	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs7298896	0.89[ASN][1000 genomes]
rs7299886	0.84[ASN][1000 genomes]
rs7308155	0.82[JPT][hapmap]
rs7958983	0.81[JPT][hapmap]
rs7962260	0.81[JPT][hapmap]
rs7967956	0.83[JPT][hapmap]
rs7968509	0.81[JPT][hapmap]
rs7971924	1.00[CHB][hapmap]
rs884866	0.84[CHB][hapmap];0.86[ASN][1000 genomes]
rs9325174	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs956066	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv899025	chr12:40191778-40321846	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv1049214	chr12:40197549-40326495	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv1046428	chr12:40226283-40439843	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv541481	chr12:40226283-40439843	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv558593	chr12:40279428-40317017	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
6	nsv558594	chr12:40299849-40303631	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
7	esv2757500	chr12:40299913-40331853	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
8	esv2759895	chr12:40299913-40331853	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
9	nsv8966	chr12:40301433-40316300	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
10	esv3485964	chr12:40301558-40315926	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
11	nsv436152	chr12:40301604-40316186	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
12	esv3485941	chr12:40301606-40315901	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
13	esv2421863	chr12:40301611-40314753	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
14	esv3485975	chr12:40301623-40315887	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
15	esv3485953	chr12:40301638-40315841	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
16	esv3485986	chr12:40301638-40315841	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
17	esv19327	chr12:40301693-40315894	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
18	esv3693121	chr12:40301720-40317017	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
19	nsv558595	chr12:40302581-40312496	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
20	nsv515811	chr12:40302599-40312496	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:40298400-40314200	Weak transcription	Fetal Kidney	kidney
2	chr12:40298800-40311200	Weak transcription	Pancreas	Pancrea
3	chr12:40299200-40304400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr12:40299200-40305600	Weak transcription	Esophagus	oesophagus
5	chr12:40299200-40306400	Weak transcription	Left Ventricle	heart
6	chr12:40299600-40306200	Weak transcription	Rectal Smooth Muscle	rectum
7	chr12:40299600-40309200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr12:40300000-40306200	Weak transcription	Stomach Smooth Muscle	stomach
9	chr12:40300200-40309000	Weak transcription	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links