Variant report

Variant	rs2737836
Chromosome Location	chr9:15505523-15505524
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TTC39B-5	chr9:15504957-15506635	NONHSAT130269

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10116904	0.88[AMR][1000 genomes]
rs10117524	0.88[AMR][1000 genomes]
rs10118595	0.88[AMR][1000 genomes]
rs10118675	0.88[AMR][1000 genomes]
rs10118719	0.82[AMR][1000 genomes]
rs10119257	0.82[AMR][1000 genomes]
rs10120171	0.88[AMR][1000 genomes]
rs10121911	0.88[AMR][1000 genomes]
rs10123084	0.88[AMR][1000 genomes]
rs10124655	0.88[AMR][1000 genomes]
rs10124718	0.88[AMR][1000 genomes]
rs1041529	0.88[AMR][1000 genomes]
rs10962061	0.88[AMR][1000 genomes]
rs12348561	0.82[AMR][1000 genomes]
rs12348564	0.82[AMR][1000 genomes]
rs12348780	0.88[AMR][1000 genomes]
rs12353048	0.82[AMR][1000 genomes]
rs1882939	1.00[AMR][1000 genomes]
rs2665503	0.89[AMR][1000 genomes]
rs2665510	1.00[AMR][1000 genomes]
rs2665511	1.00[AMR][1000 genomes]
rs2665512	1.00[AMR][1000 genomes]
rs2795123	1.00[AMR][1000 genomes]
rs2795124	1.00[AMR][1000 genomes]
rs2821533	1.00[AMR][1000 genomes]
rs28449490	0.88[AMR][1000 genomes]
rs28610358	0.94[AMR][1000 genomes]
rs28735068	0.88[AMR][1000 genomes]
rs28808908	0.88[AMR][1000 genomes]
rs28844368	0.88[AMR][1000 genomes]
rs28882210	0.88[AMR][1000 genomes]
rs7021840	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7860339	0.88[AMR][1000 genomes]
rs909323	0.94[AMR][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	nsv517975	chr9:15286446-15534070	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv892626	chr9:15389610-15694690	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv892628	chr9:15420805-15528290	Strong transcription Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS 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	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15442800-15508400	Strong transcription	Fetal Thymus	thymus
2	chr9:15447000-15509800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr9:15449800-15509000	Weak transcription	Small Intestine	intestine
4	chr9:15454600-15508600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr9:15460800-15510000	Weak transcription	Esophagus	oesophagus
6	chr9:15467400-15505600	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr9:15469200-15505600	Weak transcription	NHLF	lung
8	chr9:15472200-15509000	Weak transcription	HMEC	breast
9	chr9:15476600-15508800	Weak transcription	Rectal Smooth Muscle	rectum
10	chr9:15476600-15510000	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr9:15477000-15509600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr9:15481600-15509600	Weak transcription	Aorta	Aorta
13	chr9:15485800-15509800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr9:15486400-15505800	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr9:15486800-15505600	Weak transcription	K562	blood
16	chr9:15492600-15508200	Weak transcription	Brain Angular Gyrus	brain
17	chr9:15492600-15509800	Weak transcription	Colonic Mucosa	Colon
18	chr9:15492800-15505800	Weak transcription	Fetal Brain Male	brain
19	chr9:15493000-15506800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr9:15493000-15507800	Strong transcription	H1 Cell Line	embryonic stem cell
21	chr9:15493000-15509800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr9:15493000-15510000	Weak transcription	Gastric	stomach
23	chr9:15493000-15510000	Weak transcription	Lung	lung
24	chr9:15493000-15510000	Weak transcription	Pancreas	Pancrea
25	chr9:15493000-15510000	Weak transcription	Spleen	Spleen
26	chr9:15493200-15505800	Weak transcription	Brain Anterior Caudate	brain
27	chr9:15493200-15509000	Weak transcription	Ovary	ovary
28	chr9:15493200-15509600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr9:15493400-15510000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr9:15493600-15507800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr9:15494000-15505800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
32	chr9:15494000-15509200	Weak transcription	Stomach Smooth Muscle	stomach
33	chr9:15494000-15510000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr9:15494200-15507800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr9:15494200-15507800	Strong transcription	HUES64 Cell Line	embryonic stem cell
36	chr9:15494400-15507800	Strong transcription	HUES48 Cell Line	embryonic stem cell
37	chr9:15494600-15507800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
38	chr9:15495800-15509000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr9:15496000-15508400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
40	chr9:15496400-15508200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr9:15496400-15508200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr9:15496400-15508800	Weak transcription	Pancreatic Islets	Pancreatic Islet
43	chr9:15496600-15508400	Strong transcription	HUES6 Cell Line	embryonic stem cell
44	chr9:15496600-15508600	Weak transcription	Fetal Heart	heart
45	chr9:15496800-15508600	Genic enhancers	Primary T helper cells fromperipheralblood	blood
46	chr9:15497200-15507800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr9:15497600-15505600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr9:15499600-15508200	Genic enhancers	Dnd41	blood
49	chr9:15500200-15507600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr9:15500400-15507600	Strong transcription	Primary B cells from peripheral blood	blood

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