Variant report

Variant	rs10738398
Chromosome Location	chr9:15492061-15492062
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:15485567..15487511-chr9:15490799..15493876,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TTC39B-5	chr9:15491950-15492223	NONHSAT130268

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1033056	0.82[ASN][1000 genomes]
rs1046388	0.83[AFR][1000 genomes]
rs10738393	0.83[AFR][1000 genomes]
rs10738395	0.82[AMR][1000 genomes]
rs10738397	0.87[AFR][1000 genomes]
rs10756666	0.85[AFR][1000 genomes]
rs10962036	0.83[AFR][1000 genomes]
rs2382530	0.86[AFR][1000 genomes]
rs2777950	0.86[AFR][1000 genomes]
rs4741501	0.81[AFR][1000 genomes]
rs4741502	0.87[AFR][1000 genomes]
rs4741505	0.87[AFR][1000 genomes]
rs4741507	0.86[AFR][1000 genomes]
rs4741508	0.91[AFR][1000 genomes]
rs7018658	0.84[AFR][1000 genomes]
rs7021042	0.95[AFR][1000 genomes]
rs7026910	0.86[AFR][1000 genomes]
rs7862428	0.93[AFR][1000 genomes]
rs907075	0.85[AFR][1000 genomes]
rs907076	0.80[AFR][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:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15433400-15492400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr9:15439000-15492200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
3	chr9:15442800-15508400	Strong transcription	Fetal Thymus	thymus
4	chr9:15443200-15492400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr9:15443800-15492200	Strong transcription	HUES64 Cell Line	embryonic stem cell
6	chr9:15444000-15492400	Strong transcription	HUES48 Cell Line	embryonic stem cell
7	chr9:15444400-15495200	Weak transcription	Fetal Heart	heart
8	chr9:15447000-15509800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr9:15449000-15492200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr9:15449800-15509000	Weak transcription	Small Intestine	intestine
11	chr9:15452200-15492400	Weak transcription	Right Ventricle	heart
12	chr9:15454600-15508600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr9:15457000-15492400	Weak transcription	Lung	lung
14	chr9:15459000-15492200	Strong transcription	H1 Cell Line	embryonic stem cell
15	chr9:15460800-15510000	Weak transcription	Esophagus	oesophagus
16	chr9:15461000-15492200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
17	chr9:15461600-15492400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr9:15461600-15492800	Weak transcription	Pancreas	Pancrea
19	chr9:15462800-15505200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr9:15466200-15492400	Weak transcription	Gastric	stomach
21	chr9:15466600-15492400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr9:15467200-15501000	Weak transcription	Colon Smooth Muscle	Colon
23	chr9:15467400-15505600	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr9:15468800-15492400	Weak transcription	Colonic Mucosa	Colon
25	chr9:15468800-15492400	Weak transcription	Spleen	Spleen
26	chr9:15469200-15505600	Weak transcription	NHLF	lung
27	chr9:15471000-15492600	Strong transcription	Primary B cells from peripheral blood	blood
28	chr9:15472200-15509000	Weak transcription	HMEC	breast
29	chr9:15473800-15492200	Weak transcription	Liver	Liver
30	chr9:15476400-15504000	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr9:15476600-15492200	Weak transcription	Left Ventricle	heart
32	chr9:15476600-15508800	Weak transcription	Rectal Smooth Muscle	rectum
33	chr9:15476600-15510000	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr9:15477000-15492400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr9:15477000-15492400	Weak transcription	Ovary	ovary
36	chr9:15477000-15504800	Weak transcription	HSMM	muscle
37	chr9:15477000-15509600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr9:15477400-15492200	Weak transcription	Fetal Brain Male	brain
39	chr9:15477600-15492400	Weak transcription	Fetal Kidney	kidney
40	chr9:15477800-15498200	Weak transcription	Placenta	Placenta
41	chr9:15478000-15505000	Weak transcription	Adipose Nuclei	Adipose
42	chr9:15478200-15492200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr9:15480000-15492400	Strong transcription	Primary T cells fromperipheralblood	blood
44	chr9:15480200-15505200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr9:15480400-15492200	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr9:15481600-15509600	Weak transcription	Aorta	Aorta
47	chr9:15482600-15492200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr9:15482600-15494200	Strong transcription	Dnd41	blood
49	chr9:15482600-15501000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr9:15483000-15492400	Strong transcription	iPS-20b Cell Line	embryonic stem cell

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