Variant report

Variant	rs12827088
Chromosome Location	chr12:45144735-45144736
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10506254	0.83[JPT][hapmap];0.87[EUR][1000 genomes]
rs10506255	0.82[JPT][hapmap];0.86[EUR][1000 genomes]
rs10785516	0.86[EUR][1000 genomes]
rs10880663	0.95[EUR][1000 genomes]
rs11182607	0.87[EUR][1000 genomes]
rs11182608	0.86[EUR][1000 genomes]
rs11182617	0.86[EUR][1000 genomes]
rs11182622	0.96[EUR][1000 genomes]
rs11182633	0.92[CEU][hapmap];0.95[EUR][1000 genomes]
rs11609932	0.83[JPT][hapmap];0.87[EUR][1000 genomes]
rs11615822	0.87[EUR][1000 genomes]
rs12578861	0.83[EUR][1000 genomes]
rs12579312	0.97[EUR][1000 genomes]
rs12580824	0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs12581256	0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs12812313	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12825403	0.83[JPT][hapmap];0.87[EUR][1000 genomes]
rs12827992	0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs12828039	0.83[JPT][hapmap];0.87[EUR][1000 genomes]
rs12830054	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12830788	0.93[CEU][hapmap];0.92[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1450538	0.87[EUR][1000 genomes]
rs1452259	0.86[EUR][1000 genomes]
rs1452260	0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs1452261	0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs1517205	0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs1562965	0.87[EUR][1000 genomes]
rs1597808	0.86[EUR][1000 genomes]
rs17573326	0.87[EUR][1000 genomes]
rs17573382	0.83[JPT][hapmap];0.87[EUR][1000 genomes]
rs17574950	0.93[EUR][1000 genomes]
rs17575124	0.93[CEU][hapmap];0.83[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17575145	0.93[CEU][hapmap];0.83[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17651444	0.83[JPT][hapmap];0.87[EUR][1000 genomes]
rs17651576	0.87[EUR][1000 genomes]
rs17652016	0.87[EUR][1000 genomes]
rs17652045	0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs17652213	0.87[EUR][1000 genomes]
rs17652890	0.83[JPT][hapmap];0.87[EUR][1000 genomes]
rs1869161	0.83[JPT][hapmap];0.87[EUR][1000 genomes]
rs2122530	0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs2290353	0.87[EUR][1000 genomes]
rs2290354	0.87[EUR][1000 genomes]
rs2290355	0.87[EUR][1000 genomes]
rs33995718	0.87[EUR][1000 genomes]
rs34059115	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34354933	0.87[EUR][1000 genomes]
rs34560815	0.87[EUR][1000 genomes]
rs34775637	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34882841	0.87[EUR][1000 genomes]
rs34985115	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35051815	0.87[EUR][1000 genomes]
rs35180883	0.87[EUR][1000 genomes]
rs35934410	0.85[EUR][1000 genomes]
rs35977363	0.87[EUR][1000 genomes]
rs36054479	0.87[EUR][1000 genomes]
rs4362200	0.82[JPT][hapmap]
rs4488263	0.85[EUR][1000 genomes]
rs55841784	0.86[EUR][1000 genomes]
rs57004692	0.83[EUR][1000 genomes]
rs57933837	0.87[EUR][1000 genomes]
rs59379685	0.82[EUR][1000 genomes]
rs61932405	0.87[EUR][1000 genomes]
rs66572050	0.87[EUR][1000 genomes]
rs67079540	0.92[ASN][1000 genomes]
rs7295695	0.83[JPT][hapmap];0.85[EUR][1000 genomes]
rs7308333	0.85[EUR][1000 genomes]
rs7953273	0.96[EUR][1000 genomes]
rs7963713	0.82[EUR][1000 genomes]
rs7971322	0.87[EUR][1000 genomes]
rs7971937	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7978549	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3378050	chr12:44963059-45264289	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv832394	chr12:45077573-45269305	Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
3	nsv1049080	chr12:45097564-45195295	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv1036926	chr12:45131884-45273648	Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
5	nsv541484	chr12:45131884-45273648	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:45134400-45165200	Weak transcription	Primary T cells fromperipheralblood	blood
2	chr12:45135400-45175000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr12:45142800-45145000	Enhancers	Fetal Brain Female	brain
4	chr12:45143200-45145000	Enhancers	Fetal Brain Male	brain
5	chr12:45143400-45145000	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr12:45143800-45145400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr12:45144000-45145000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr12:45144400-45145000	Enhancers	Brain Germinal Matrix	brain

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