Variant report

Variant	rs10738392
Chromosome Location	chr9:15423548-15423549
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:15421340..15424109-chr9:15510012..15511838,2	K562	blood:
2	chr17:56083086..56085615-chr9:15422777..15425325,2	MCF-7	breast:
3	chr9:15422138..15423750-chr9:15430824..15433204,2	K562	blood:
4	chr9:15306135..15309581-chr9:15420818..15425516,6	MCF-7	breast:
5	chr9:15422069..15423659-chr9:15430578..15433740,3	K562	blood:
6	chr9:15420595..15424773-chr9:15424796..15433036,11	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136450	Chromatin interaction
ENSG00000164985	Chromatin interaction
ENSG00000155158	Chromatin interaction
ENSG00000251834	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10081655	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10115540	0.94[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10117968	0.94[CHB][hapmap]
rs1033056	0.81[CHB][hapmap]
rs10481556	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10511611	0.86[YRI][hapmap];0.82[AFR][1000 genomes]
rs10733292	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs10738393	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs10738395	0.94[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs10738397	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs10756663	0.82[EUR][1000 genomes]
rs10756664	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10756665	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10756666	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs10756667	0.86[EUR][1000 genomes]
rs10756669	0.86[EUR][1000 genomes]
rs1123038	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12093	0.94[JPT][hapmap];0.89[YRI][hapmap]
rs13248	0.96[YRI][hapmap];0.85[AFR][1000 genomes]
rs1397214	0.93[CHB][hapmap];0.89[JPT][hapmap]
rs1397215	0.94[CHB][hapmap];0.87[JPT][hapmap]
rs16933311	0.96[YRI][hapmap];0.86[AFR][1000 genomes]
rs16933316	0.96[YRI][hapmap];0.86[AFR][1000 genomes]
rs1976599	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2136710	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2175258	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2175259	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs2382529	0.84[EUR][1000 genomes]
rs2665504	0.80[CHB][hapmap];1.00[JPT][hapmap]
rs2737829	0.87[CHB][hapmap];0.94[JPT][hapmap]
rs2737831	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs2737842	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs4741498	0.84[EUR][1000 genomes]
rs4741500	0.92[CHB][hapmap];0.94[JPT][hapmap];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4741501	1.00[JPT][hapmap]
rs4741503	0.86[EUR][1000 genomes]
rs4741504	0.93[CHB][hapmap];0.94[JPT][hapmap];0.86[EUR][1000 genomes]
rs4741505	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs4741506	0.94[CHB][hapmap];0.94[JPT][hapmap];0.85[EUR][1000 genomes]
rs4741507	0.88[JPT][hapmap]
rs4741508	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs60046377	0.82[AFR][1000 genomes]
rs6474915	0.88[CHB][hapmap];0.80[JPT][hapmap]
rs6474916	1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs6474918	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6474923	0.93[CHB][hapmap];0.87[JPT][hapmap];0.86[EUR][1000 genomes]
rs7021042	0.94[JPT][hapmap]
rs7023290	0.88[EUR][1000 genomes]
rs7026910	0.92[CHB][hapmap];1.00[JPT][hapmap]
rs7026970	0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs7029985	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7034447	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7040353	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7042165	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7046713	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs7470323	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs907075	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs907076	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs9650682	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs9650683	0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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	nsv1030287	chr9:15332709-15458001	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	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
5	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
6	nsv831520	chr9:15404866-15444447	Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases
7	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:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15421800-15424000	Active TSS	iPS-20b Cell Line	embryonic stem cell
2	chr9:15422000-15423800	Active TSS	Brain Angular Gyrus	brain
3	chr9:15422000-15423800	Active TSS	Brain Hippocampus Middle	brain
4	chr9:15422000-15423800	Active TSS	Thymus	Thymus
5	chr9:15422000-15424000	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:15422000-15424000	Active TSS	Brain Anterior Caudate	brain
7	chr9:15422000-15424000	Active TSS	Brain Cingulate Gyrus	brain
8	chr9:15422000-15424000	Active TSS	Pancreatic Islets	Pancreatic Islet
9	chr9:15422000-15424200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr9:15422000-15424200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
11	chr9:15422000-15424200	Active TSS	Duodenum Smooth Muscle	Duodenum
12	chr9:15422000-15424200	Active TSS	Right Atrium	heart
13	chr9:15422000-15424200	Active TSS	Right Ventricle	heart
14	chr9:15422000-15424400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr9:15422000-15424600	Active TSS	NHDF-Ad	bronchial
16	chr9:15422000-15424600	Active TSS	NHLF	lung
17	chr9:15422000-15424800	Active TSS	K562	blood
18	chr9:15422200-15423600	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr9:15422200-15423600	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr9:15422200-15423600	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr9:15422200-15423600	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr9:15422200-15423600	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
23	chr9:15422200-15423800	Active TSS	HUES6 Cell Line	embryonic stem cell
24	chr9:15422200-15423800	Active TSS	Primary T killer naive cells fromperipheralblood	blood
25	chr9:15422200-15423800	Active TSS	Brain Substantia Nigra	brain
26	chr9:15422200-15423800	Active TSS	Esophagus	oesophagus
27	chr9:15422200-15423800	Active TSS	Placenta	Placenta
28	chr9:15422200-15423800	Active TSS	Placenta Amnion	Placenta Amnion
29	chr9:15422200-15423800	Active TSS	Psoas Muscle	Psoas
30	chr9:15422200-15424000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr9:15422200-15424000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr9:15422200-15424000	Active TSS	Left Ventricle	heart
33	chr9:15422200-15424000	Active TSS	Pancreas	Pancrea
34	chr9:15422200-15424000	Active TSS	HSMM	muscle
35	chr9:15422200-15424200	Active TSS	ES-I3 Cell Line	embryonic stem cell
36	chr9:15422200-15424200	Active TSS	H1 Cell Line	embryonic stem cell
37	chr9:15422200-15424200	Active TSS	H9 Cell Line	embryonic stem cell
38	chr9:15422200-15424200	Active TSS	iPS-15b Cell Line	embryonic stem cell
39	chr9:15422200-15424200	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr9:15422200-15424200	Active TSS	Breast Myoepithelial Primary Cells	Breast
41	chr9:15422200-15424200	Flanking Active TSS	Primary B cells from cord blood	blood
42	chr9:15422200-15424200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr9:15422200-15424200	Active TSS	Aorta	Aorta
44	chr9:15422200-15424200	Active TSS	Colonic Mucosa	Colon
45	chr9:15422200-15424200	Active TSS	Ovary	ovary
46	chr9:15422200-15424200	Active TSS	HSMMtube	muscle
47	chr9:15422200-15424400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr9:15422200-15424400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr9:15422200-15424600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr9:15422200-15424600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin

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