Variant report

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SMC5-4	chr9:72991891-72992282	NONHSAT131815

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10780924	1.00[CHB][hapmap]
rs10868800	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs1112937	1.00[CHB][hapmap]
rs11142364	1.00[CHB][hapmap]
rs11142372	1.00[CHB][hapmap]
rs11142377	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs11142379	1.00[CHB][hapmap]
rs11521805	1.00[CHB][hapmap]
rs1180082	1.00[CHB][hapmap]
rs1180086	1.00[CHB][hapmap]
rs1180089	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs1180091	1.00[CHB][hapmap]
rs1180094	1.00[CHB][hapmap]
rs1180099	1.00[CHB][hapmap]
rs1180100	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs1180110	1.00[CHB][hapmap]
rs1180113	1.00[CHB][hapmap]
rs1180119	1.00[CHB][hapmap]
rs1180127	1.00[CHB][hapmap]
rs17052678	1.00[CHB][hapmap]
rs1927094	1.00[CHB][hapmap]
rs1927146	1.00[CHB][hapmap]
rs2182735	1.00[CHB][hapmap]
rs2309644	1.00[CHB][hapmap]
rs2309645	1.00[CHB][hapmap];0.85[CHD][hapmap]
rs7043171	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7047789	1.00[CHB][hapmap]
rs943535	1.00[CHB][hapmap];0.85[CHD][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	nsv1047862	chr9:72746875-73138287	Enhancers Strong transcription Genic enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv831615	chr9:72852705-73019692	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv1049132	chr9:72895382-73005897	Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72944000-73002600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr9:72972800-73002400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr9:72978200-73001000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr9:72983200-72992600	Weak transcription	Psoas Muscle	Psoas
5	chr9:72989000-72999600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr9:72990000-72993000	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr9:72990000-72997600	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr9:72990000-72998000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr9:72990200-72992600	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr9:72990200-72997000	Weak transcription	Right Atrium	heart
11	chr9:72990200-72997200	Weak transcription	Adipose Nuclei	Adipose
12	chr9:72990200-72998200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr9:72990200-72998200	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr9:72990200-73000400	Weak transcription	Ovary	ovary
15	chr9:72990400-72997600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr9:72990400-73000400	Weak transcription	Osteobl	bone
17	chr9:72990800-72998000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr9:72992000-73002400	Weak transcription	Aorta	Aorta

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