Variant report

Variant	rs10845080
Chromosome Location	chr12:10393338-10393339
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:10390106..10391990-chr12:10392432..10394861,2	K562	blood:
2	chr12:10392959..10394973-chr12:10709982..10712933,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GABARAPL1-1	chr12:10393135-10393339	XLOC_009659

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11053736	0.83[ASN][1000 genomes]
rs12578135	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12581396	0.95[ASN][1000 genomes]
rs2045877	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2537802	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs56726194	0.89[ASN][1000 genomes]
rs57401526	0.95[ASN][1000 genomes]
rs58690639	0.95[ASN][1000 genomes]
rs60130117	0.95[ASN][1000 genomes]
rs7135451	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7297855	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs74062115	0.92[ASN][1000 genomes]
rs7966462	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9788026	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898757	chr12:10229281-10614641	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv1054811	chr12:10350587-10440005	Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:10376400-10395000	Weak transcription	Pancreas	Pancrea
2	chr12:10376400-10397600	Weak transcription	Aorta	Aorta
3	chr12:10377200-10394200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr12:10377200-10394600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr12:10377200-10399000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr12:10377800-10404400	Weak transcription	Left Ventricle	heart
7	chr12:10380200-10395800	Weak transcription	Thymus	Thymus
8	chr12:10387200-10396800	Weak transcription	Liver	Liver
9	chr12:10389200-10394400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr12:10390200-10393400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr12:10390400-10394800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr12:10392000-10395600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr12:10392200-10393800	Weak transcription	Fetal Lung	lung
14	chr12:10392200-10395200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr12:10392600-10396600	Weak transcription	Adipose Nuclei	Adipose
16	chr12:10392800-10393400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr12:10392800-10396000	Strong transcription	Placenta	Placenta
18	chr12:10393200-10393800	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr12:10393200-10394000	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr12:10393200-10394600	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr12:10393200-10394800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
22	chr12:10393200-10395200	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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