Variant report

Variant	rs10880073
Chromosome Location	chr12:41813440-41813441
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 123 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:116)

rs_ID	r²[population]
rs1000147	0.80[JPT][hapmap]
rs10735994	0.84[ASN][1000 genomes]
rs10785264	0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs10785266	0.95[JPT][hapmap];0.81[YRI][hapmap]
rs10880071	0.90[JPT][hapmap]
rs10880075	0.89[ASN][1000 genomes]
rs10880076	0.93[ASN][1000 genomes]
rs11180934	0.95[JPT][hapmap]
rs1155220	0.93[ASN][1000 genomes]
rs1160183	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1160184	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1160748	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1160749	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11614231	0.84[JPT][hapmap]
rs12314238	0.94[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1350429	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1350430	1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1379758	0.82[ASN][1000 genomes]
rs1379759	0.82[ASN][1000 genomes]
rs1379760	0.82[ASN][1000 genomes]
rs1379761	0.82[ASN][1000 genomes]
rs1379763	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs1379764	0.82[ASN][1000 genomes]
rs1379770	0.82[ASN][1000 genomes]
rs1379771	0.82[ASN][1000 genomes]
rs1379772	0.82[ASN][1000 genomes]
rs1379773	0.93[ASN][1000 genomes]
rs1379774	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs1379775	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1379776	0.93[ASN][1000 genomes]
rs1458159	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1458165	0.80[JPT][hapmap]
rs1458166	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1458167	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1458168	0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs1471162	0.93[ASN][1000 genomes]
rs1471163	0.93[ASN][1000 genomes]
rs1551593	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1551595	0.93[ASN][1000 genomes]
rs1551596	0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs1598894	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1841025	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs1870285	0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs1870286	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1902906	0.82[ASN][1000 genomes]
rs2125286	0.82[ASN][1000 genomes]
rs2125287	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs2250009	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2250908	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2251259	0.92[ASN][1000 genomes]
rs2251349	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2251672	0.89[ASN][1000 genomes]
rs2251683	0.93[ASN][1000 genomes]
rs2251684	0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs2255035	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs2255145	0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs2255152	0.82[ASN][1000 genomes]
rs2255404	0.82[ASN][1000 genomes]
rs2405919	0.95[JPT][hapmap]
rs2405921	0.82[ASN][1000 genomes]
rs2446143	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2446144	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2468314	0.95[JPT][hapmap]
rs2468317	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs2608689	0.82[ASN][1000 genomes]
rs2608690	0.82[ASN][1000 genomes]
rs2608692	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2608696	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs2608697	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs2608701	0.93[ASN][1000 genomes]
rs2608703	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2608704	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2608705	0.81[ASN][1000 genomes]
rs2608706	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs2608707	0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs2608708	0.95[JPT][hapmap]
rs2608710	0.93[ASN][1000 genomes]
rs2608715	0.95[JPT][hapmap]
rs2608718	0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs2730802	0.82[ASN][1000 genomes]
rs2730804	0.89[ASN][1000 genomes]
rs2730805	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2730807	0.95[JPT][hapmap]
rs2730809	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2730810	0.92[ASN][1000 genomes]
rs2730811	0.93[ASN][1000 genomes]
rs2730817	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2730818	0.91[ASN][1000 genomes]
rs2730819	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2730820	0.93[ASN][1000 genomes]
rs2730821	0.93[ASN][1000 genomes]
rs2730822	0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs2730824	0.82[ASN][1000 genomes]
rs2730828	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2730829	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2733274	1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2733275	0.95[JPT][hapmap]
rs2733278	0.95[JPT][hapmap]
rs2733282	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2733291	0.93[ASN][1000 genomes]
rs2733293	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2733297	0.93[ASN][1000 genomes]
rs2733298	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2733299	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs2957590	0.93[ASN][1000 genomes]
rs35766123	0.89[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs4584644	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4768353	0.93[ASN][1000 genomes]
rs7133365	0.88[ASN][1000 genomes]
rs7298808	1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7977318	0.95[JPT][hapmap]
rs897973	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs971998	0.95[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs981012	0.93[ASN][1000 genomes]
rs989904	0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs996356	1.00[JPT][hapmap];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832383	chr12:41693298-41846934	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
2	nsv832384	chr12:41772648-41971430	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv899037	chr12:41777144-41819215	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	n/a
4	esv2757501	chr12:41780758-41816002	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	n/a
5	esv2759896	chr12:41780758-41816002	Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	n/a
6	esv2755020	chr12:41780758-41820936	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	n/a
7	nsv899038	chr12:41784137-41819215	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:41812000-41813600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
2	chr12:41812000-41814400	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr12:41812000-41814400	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr12:41812000-41814600	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr12:41812000-41814600	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr12:41812200-41814400	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr12:41812400-41814200	Enhancers	H1 Cell Line	embryonic stem cell
8	chr12:41812400-41814200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr12:41812400-41814400	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr12:41812400-41814400	Enhancers	H9 Cell Line	embryonic stem cell
11	chr12:41812600-41813800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr12:41813000-41814400	Enhancers	HUES6 Cell Line	embryonic stem cell

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