Variant report

Variant	rs12154117
Chromosome Location	chr6:70943041-70943042
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10806630	0.85[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10806631	1.00[MEX][hapmap]
rs10945202	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10945205	1.00[ASN][1000 genomes]
rs10945206	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11757395	0.88[ASN][1000 genomes]
rs12153874	0.88[ASN][1000 genomes]
rs12153902	0.95[ASN][1000 genomes]
rs12191701	0.85[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12191702	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12192237	0.85[CHD][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.86[ASN][1000 genomes]
rs12195968	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12201626	0.85[CHD][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.86[ASN][1000 genomes]
rs12204438	1.00[JPT][hapmap]
rs12209857	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12210719	0.85[CHD][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.86[ASN][1000 genomes]
rs12210870	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap];0.95[ASN][1000 genomes]
rs12211880	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12213613	0.95[ASN][1000 genomes]
rs1321059	0.90[MEX][hapmap]
rs1464159	0.86[ASN][1000 genomes]
rs16868641	0.88[YRI][hapmap]
rs1711729	0.91[ASN][1000 genomes]
rs2176356	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2274584	0.90[MEX][hapmap]
rs45464198	1.00[ASN][1000 genomes]
rs510423	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs59322080	0.95[ASN][1000 genomes]
rs6922941	0.95[ASN][1000 genomes]
rs6923114	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6932776	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6937501	0.88[YRI][hapmap]
rs72923164	1.00[ASN][1000 genomes]
rs72923166	1.00[ASN][1000 genomes]
rs7741471	0.87[ASN][1000 genomes]
rs7759110	0.95[ASN][1000 genomes]
rs9354910	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[ASN][1000 genomes]
rs9354911	1.00[MEX][hapmap]

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	nsv1026151	chr6:70621616-70946967	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv933674	chr6:70663616-70973112	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv932111	chr6:70736835-71633094	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv886142	chr6:70741209-71251421	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:70931400-70961400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:70932600-70951800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr6:70933000-70951800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr6:70933600-70947800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr6:70934400-70951600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr6:70939000-70951600	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr6:70942800-70944200	Weak transcription	Fetal Stomach	stomach
8	chr6:70943000-70946400	Weak transcription	Fetal Brain Male	brain

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