Variant report

Variant	rs9926795
Chromosome Location	chr16:81346417-81346418
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GCSH-1	chr16:81345111-81348378	NONHSAT143942
2	lnc-GCSH-1	chr16:81344336-81347028	ENSG00000260495.1
3	lnc-GAN-2	chr16:81346284-81346800	NONHSAT143940

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10454708	0.95[ASN][1000 genomes]
rs11150384	0.95[ASN][1000 genomes]
rs11150386	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12149852	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12597517	0.82[ASN][1000 genomes]
rs12599564	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12924233	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs3809632	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4468614	0.95[ASN][1000 genomes]
rs4522413	0.89[ASN][1000 genomes]
rs4598907	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4888135	0.95[ASN][1000 genomes]
rs4888137	0.89[ASN][1000 genomes]
rs4889299	1.00[JPT][hapmap]
rs62047162	0.89[EUR][1000 genomes]
rs6564868	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7184259	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7186648	0.95[ASN][1000 genomes]
rs7195134	0.95[ASN][1000 genomes]
rs7196075	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs8055879	0.89[ASN][1000 genomes]
rs8060840	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9940292	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532569	chr16:80980356-81700149	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Bivalent Enhancer 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 miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv532597	chr16:81009718-81388348	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
3	nsv1058519	chr16:81177767-81735333	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	36 gene(s)	inside rSNPs	diseases
4	nsv948448	chr16:81198147-81906766	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	37 gene(s)	inside rSNPs	diseases
5	nsv522890	chr16:81341363-81348396	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:81328000-81347000	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr16:81328200-81347000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr16:81328600-81347000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr16:81330600-81347200	Weak transcription	Gastric	stomach
5	chr16:81331600-81347000	Weak transcription	Right Ventricle	heart
6	chr16:81334400-81346600	Weak transcription	Colon Smooth Muscle	Colon
7	chr16:81334600-81347200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr16:81337600-81347000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr16:81338200-81346600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr16:81338400-81347000	Weak transcription	Spleen	Spleen
11	chr16:81338400-81347200	Weak transcription	Primary B cells from cord blood	blood
12	chr16:81338400-81347400	Weak transcription	Aorta	Aorta
13	chr16:81338600-81346600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr16:81338600-81347400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr16:81338800-81346600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr16:81339600-81346600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr16:81340800-81347000	Weak transcription	Fetal Muscle Leg	muscle
18	chr16:81342000-81347000	Weak transcription	Fetal Lung	lung
19	chr16:81342200-81346600	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr16:81342200-81346800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr16:81342600-81346600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr16:81343200-81347000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr16:81343200-81347000	Weak transcription	NHDF-Ad	bronchial
24	chr16:81343200-81347200	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr16:81343200-81347400	Enhancers	Primary T helper cells PMA-I stimulated	--
26	chr16:81343600-81347200	Weak transcription	Pancreas	Pancrea
27	chr16:81344000-81347200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr16:81344000-81347200	Weak transcription	Placenta	Placenta
29	chr16:81344200-81346600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr16:81344200-81347000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr16:81344200-81347000	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr16:81344200-81347000	Weak transcription	K562	blood
33	chr16:81344400-81347000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr16:81344400-81347000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr16:81344400-81347200	Weak transcription	A549	lung
36	chr16:81344600-81347000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
37	chr16:81344600-81347000	Weak transcription	Liver	Liver
38	chr16:81344600-81347000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr16:81344600-81347000	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr16:81344600-81347000	Weak transcription	NHEK	skin
41	chr16:81344600-81347200	Weak transcription	Fetal Thymus	thymus
42	chr16:81344800-81346800	Weak transcription	Fetal Brain Male	brain
43	chr16:81344800-81347000	Weak transcription	HSMM	muscle
44	chr16:81344800-81347200	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr16:81345000-81346800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr16:81345000-81347400	Weak transcription	Lung	lung
47	chr16:81345200-81347200	Enhancers	Brain Substantia Nigra	brain
48	chr16:81345400-81347000	Enhancers	Brain Cingulate Gyrus	brain
49	chr16:81345400-81347000	Weak transcription	Fetal Heart	heart
50	chr16:81345400-81347200	Weak transcription	Esophagus	oesophagus

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