Variant report

Variant	rs9321958
Chromosome Location	chr6:144358117-144358118
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf94-3	chr6:144357755-144358118	NONHSAT115375

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11155340	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12175856	1.00[YRI][hapmap]
rs12207102	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1983773	1.00[YRI][hapmap]
rs2064660	0.85[ASN][1000 genomes]
rs2328542	0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2328564	1.00[YRI][hapmap]
rs4896693	0.92[ASN][1000 genomes]
rs6570602	0.85[CEU][hapmap];0.85[CHB][hapmap]
rs6901529	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6929575	0.91[ASN][1000 genomes]
rs7743691	0.99[ASN][1000 genomes]
rs7747271	0.81[ASW][hapmap]
rs7752303	1.00[CHB][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs7772820	1.00[ASW][hapmap];0.96[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.86[TSI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9321957	1.00[CHB][hapmap];0.85[CHD][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs9321960	0.81[ASW][hapmap];0.81[CEU][hapmap];0.81[CHB][hapmap]
rs9321961	0.85[CHB][hapmap]
rs9386055	0.84[ASN][1000 genomes]
rs9390157	1.00[YRI][hapmap]
rs9496839	0.88[ASN][1000 genomes]
rs9496860	0.84[CHB][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	esv3408554	chr6:144106707-144369589	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	esv3522138	chr6:144174685-144367463	Enhancers Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	esv3522139	chr6:144174685-144367463	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv830830	chr6:144177942-144380870	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144355600-144359800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr6:144356600-144358200	Enhancers	Spleen	Spleen
3	chr6:144356800-144358400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
4	chr6:144356800-144358400	Flanking Active TSS	Primary hematopoietic stem cells	blood
5	chr6:144357000-144358200	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
6	chr6:144357000-144358400	Enhancers	Primary B cells from peripheral blood	blood
7	chr6:144357200-144358200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr6:144357200-144358200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:144357200-144358200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr6:144357200-144358200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr6:144357200-144358200	Enhancers	Fetal Thymus	thymus
12	chr6:144357200-144358200	Enhancers	Sigmoid Colon	Sigmoid Colon
13	chr6:144357200-144358200	Active TSS	Stomach Smooth Muscle	stomach
14	chr6:144357200-144358200	Flanking Active TSS	GM12878-XiMat	blood
15	chr6:144357200-144358200	Flanking Active TSS	NHDF-Ad	bronchial
16	chr6:144357200-144358200	Flanking Active TSS	NHLF	lung
17	chr6:144357200-144358200	Flanking Active TSS	Osteobl	bone
18	chr6:144357200-144358400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr6:144357200-144358400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr6:144357400-144358200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
21	chr6:144357400-144358200	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr6:144357400-144358200	Enhancers	Brain Angular Gyrus	brain
23	chr6:144357400-144358200	Active TSS	Brain Inferior Temporal Lobe	brain
24	chr6:144357400-144358200	Enhancers	Fetal Intestine Small	intestine
25	chr6:144357400-144358200	Active TSS	Pancreatic Islets	Pancreatic Islet
26	chr6:144357400-144358200	Flanking Active TSS	Fetal Lung	lung
27	chr6:144357400-144358200	Enhancers	K562	blood
28	chr6:144357800-144358200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr6:144357800-144358200	Enhancers	Liver	Liver
30	chr6:144357800-144358200	Enhancers	Brain Substantia Nigra	brain
31	chr6:144357800-144358200	Enhancers	Fetal Kidney	kidney
32	chr6:144357800-144358200	Enhancers	Placenta	Placenta
33	chr6:144357800-144358200	Active TSS	Ovary	ovary
34	chr6:144357800-144358200	Active TSS	Skeletal Muscle Female	skeletal muscle
35	chr6:144357800-144358400	Enhancers	Primary T helper cells PMA-I stimulated	--
36	chr6:144357800-144358400	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr6:144358000-144358200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr6:144358000-144358200	Active TSS	Primary B cells from cord blood	blood
39	chr6:144358000-144358200	Active TSS	Primary T helper cells fromperipheralblood	blood
40	chr6:144358000-144358200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr6:144358000-144358200	Flanking Active TSS	Adipose Nuclei	Adipose
42	chr6:144358000-144358200	Flanking Active TSS	Colon Smooth Muscle	Colon
43	chr6:144358000-144358200	Enhancers	Duodenum Mucosa	Duodenum
44	chr6:144358000-144358200	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
45	chr6:144358000-144358200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
46	chr6:144358000-144358200	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
47	chr6:144358000-144358200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
48	chr6:144358000-144358200	Bivalent Enhancer	HepG2	liver
49	chr6:144358000-144358200	Enhancers	HMEC	breast
50	chr6:144358000-144358400	Enhancers	Fetal Intestine Large	intestine

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