Variant report

Variant	rs11180955
Chromosome Location	chr12:41887192-41887193
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 99 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10219633	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs10506194	0.81[JPT][hapmap]
rs10785234	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs10880037	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs10880068	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs10880069	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs10880070	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs10880080	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs10880083	0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10880084	0.81[JPT][hapmap]
rs10880085	0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10880097	0.81[JPT][hapmap]
rs11180782	0.88[CHB][hapmap];0.90[JPT][hapmap]
rs11180829	1.00[JPT][hapmap]
rs11180830	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180833	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11180840	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180841	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180844	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180845	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180849	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11180852	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11180855	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11180860	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11180868	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11180873	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11180874	1.00[CHB][hapmap]
rs11180875	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180879	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180883	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180886	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180894	0.81[ASN][1000 genomes]
rs11180902	0.83[ASN][1000 genomes]
rs11180903	0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs11180904	0.83[ASN][1000 genomes]
rs11180910	0.86[ASN][1000 genomes]
rs11180913	0.88[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11180915	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11180917	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11180921	0.86[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11180922	0.86[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11180928	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180932	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11180935	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180941	0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11180944	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180945	0.96[ASN][1000 genomes]
rs11180947	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180948	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180949	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180950	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11180952	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180954	0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11180959	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180962	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11180963	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs11180964	1.00[JPT][hapmap]
rs11180965	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180966	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11180967	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180968	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180969	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs11180970	0.81[JPT][hapmap]
rs11180972	0.81[JPT][hapmap]
rs11180973	0.81[JPT][hapmap]
rs11180974	0.81[JPT][hapmap]
rs11180975	0.81[JPT][hapmap]
rs11180976	0.81[JPT][hapmap]
rs11180978	0.81[JPT][hapmap]
rs11180983	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs11180989	0.81[JPT][hapmap]
rs11180995	0.81[JPT][hapmap]
rs11180997	0.81[JPT][hapmap]
rs11181010	0.81[JPT][hapmap]
rs12227540	0.81[JPT][hapmap]
rs12228172	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs12230294	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs12231433	0.88[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12231803	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12232019	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs12582204	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12582987	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1379766	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs1458153	0.81[JPT][hapmap]
rs1458172	0.81[JPT][hapmap]
rs1458173	0.81[JPT][hapmap]
rs17129417	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs17129436	0.88[CHB][hapmap]
rs1918230	0.88[CHB][hapmap];0.90[JPT][hapmap]
rs3214027	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs725527	0.81[JPT][hapmap]
rs7299395	0.82[JPT][hapmap]
rs7968280	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs7969769	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7979435	0.88[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9652045	0.86[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	esv3337301	chr12:41851654-42093677	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv826349	chr12:41878846-41911495	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 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	chr12:41869600-41905200	Weak transcription	Colon Smooth Muscle	Colon
2	chr12:41877400-41903600	Weak transcription	Ovary	ovary
3	chr12:41886200-41887400	Enhancers	Brain Anterior Caudate	brain
4	chr12:41886200-41887400	Enhancers	Brain Substantia Nigra	brain
5	chr12:41886200-41891800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr12:41886600-41887800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr12:41887000-41887200	Flanking Active TSS	Brain Hippocampus Middle	brain
8	chr12:41887000-41887800	Enhancers	Brain Germinal Matrix	brain

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