Variant report

Variant	rs6494593
Chromosome Location	chr15:32984196-32984197
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GREM1-1	chr15:32983911-32984505	NONHSAT041523

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11071897	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1258714	1.00[JPT][hapmap]
rs1406388	1.00[JPT][hapmap]
rs1534594	1.00[JPT][hapmap]
rs1997316	1.00[CHB][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4779583	0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs6494577	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6494581	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7403093	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7497115	1.00[JPT][hapmap]
rs7497354	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422296	chr15:32798938-33221215	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv469587	chr15:32821940-32986579	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv482780	chr15:32821940-32986579	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv456785	chr15:32926076-33352989	Genic enhancers Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv568913	chr15:32926076-33352989	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	nsv482680	chr15:32958401-33154005	Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv568915	chr15:32965357-32994056	Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv456787	chr15:32968923-33023951	Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv568916	chr15:32968923-33023951	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:32964600-32990800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr15:32964800-32993800	Weak transcription	Fetal Brain Male	brain
3	chr15:32973200-32986000	Weak transcription	Brain Germinal Matrix	brain
4	chr15:32975200-32986000	Weak transcription	Brain Hippocampus Middle	brain
5	chr15:32978800-32996400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr15:32980600-32991200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr15:32980800-32986600	Weak transcription	HSMM	muscle
8	chr15:32980800-32990600	Weak transcription	Fetal Brain Female	brain
9	chr15:32980800-32992400	Weak transcription	Stomach Mucosa	stomach
10	chr15:32980800-32993600	Weak transcription	Pancreas	Pancrea
11	chr15:32980800-32996200	Weak transcription	HSMMtube	muscle
12	chr15:32982600-32984400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr15:32983000-32985000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr15:32983200-32984400	Enhancers	Brain Substantia Nigra	brain
15	chr15:32983400-32984200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr15:32983400-32984200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr15:32983400-32984200	Enhancers	Brain Inferior Temporal Lobe	brain
18	chr15:32983400-32984400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr15:32983600-32984200	Strong transcription	Liver	Liver
20	chr15:32983600-32984400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr15:32983600-32985600	Strong transcription	NHEK	skin
22	chr15:32983800-32984400	Enhancers	Brain Anterior Caudate	brain
23	chr15:32983800-32984800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
24	chr15:32983800-32985000	Strong transcription	Pancreatic Islets	Pancreatic Islet
25	chr15:32984000-32984200	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr15:32984000-32984400	Enhancers	Brain Cingulate Gyrus	brain
27	chr15:32984000-32984400	Enhancers	NHDF-Ad	bronchial

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