Variant report

Variant	rs9788152
Chromosome Location	chr12:86176136-86176137
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RASSF9-1	chr12:86175670-86176222	NONHSAT029756

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10506921	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10863085	0.81[ASN][1000 genomes]
rs11608717	0.89[ASN][1000 genomes]
rs11608719	0.89[ASN][1000 genomes]
rs11610120	0.89[ASN][1000 genomes]
rs11610627	0.89[ASN][1000 genomes]
rs11610763	0.89[ASN][1000 genomes]
rs11610789	0.89[ASN][1000 genomes]
rs11611968	0.89[ASN][1000 genomes]
rs11612432	0.89[ASN][1000 genomes]
rs11612928	0.89[ASN][1000 genomes]
rs11612938	0.89[ASN][1000 genomes]
rs11613070	0.89[ASN][1000 genomes]
rs11614513	0.89[ASN][1000 genomes]
rs11830132	0.81[ASN][1000 genomes]
rs11830880	0.82[ASN][1000 genomes]
rs11831336	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11831936	0.82[ASN][1000 genomes]
rs11837152	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12829972	0.89[ASN][1000 genomes]
rs17279205	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17279916	0.89[ASN][1000 genomes]
rs17280755	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17345028	0.81[ASN][1000 genomes]
rs17345522	0.89[ASN][1000 genomes]
rs17345787	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17345849	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17346231	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2061686	0.89[ASN][1000 genomes]
rs34555363	0.89[ASN][1000 genomes]
rs35034633	0.89[ASN][1000 genomes]
rs35648674	0.89[ASN][1000 genomes]
rs36046732	0.89[ASN][1000 genomes]
rs4131243	0.86[ASN][1000 genomes]
rs4897829	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4897830	0.89[ASN][1000 genomes]
rs4897831	0.89[ASN][1000 genomes]
rs4897834	0.89[ASN][1000 genomes]
rs56135828	0.89[ASN][1000 genomes]
rs56330110	0.89[ASN][1000 genomes]
rs58742237	0.89[ASN][1000 genomes]
rs59858864	0.89[ASN][1000 genomes]
rs60000164	0.86[ASN][1000 genomes]
rs60539006	0.89[ASN][1000 genomes]
rs60947649	0.89[ASN][1000 genomes]
rs61928899	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61928905	0.82[ASN][1000 genomes]
rs61928906	0.82[ASN][1000 genomes]
rs61928907	0.82[ASN][1000 genomes]
rs61928909	0.89[ASN][1000 genomes]
rs61928912	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61928914	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61928916	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61928920	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61928955	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61930029	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61930036	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61930064	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61930066	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61930076	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61930139	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61930624	0.89[ASN][1000 genomes]
rs61930625	0.89[ASN][1000 genomes]
rs61930626	0.89[ASN][1000 genomes]
rs61930629	0.89[ASN][1000 genomes]
rs61930631	0.89[ASN][1000 genomes]
rs61930632	0.89[ASN][1000 genomes]
rs61930633	0.89[ASN][1000 genomes]
rs61930637	0.89[ASN][1000 genomes]
rs61930639	0.89[ASN][1000 genomes]
rs61930640	0.89[ASN][1000 genomes]
rs61930641	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61930644	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs66656505	0.89[ASN][1000 genomes]
rs67914794	0.89[ASN][1000 genomes]
rs73174576	0.89[ASN][1000 genomes]
rs73176549	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73176583	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73184562	0.81[ASN][1000 genomes]
rs7397266	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7399276	0.89[ASN][1000 genomes]
rs7399277	0.89[ASN][1000 genomes]
rs7954472	0.83[ASN][1000 genomes]
rs7979156	0.89[ASN][1000 genomes]
rs9788214	0.89[ASN][1000 genomes]
rs9788252	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054573	chr12:85658602-86235433	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1035600	chr12:85661373-86235433	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1052187	chr12:85954455-86278200	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv541560	chr12:85954455-86278200	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv1049179	chr12:86056376-86799188	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv974006	chr12:86173654-86176914	Enhancers Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:86170200-86179200	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr12:86171800-86177000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr12:86173000-86176400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr12:86173600-86177800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr12:86173800-86176600	Weak transcription	A549	lung
6	chr12:86174000-86177800	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr12:86174000-86178000	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr12:86175600-86176800	Enhancers	Esophagus	oesophagus
9	chr12:86175600-86177400	Enhancers	Fetal Lung	lung
10	chr12:86175800-86177200	Enhancers	Hela-S3	cervix

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