Variant report

Variant	rs10739234
Chromosome Location	chr9:110047316-110047317
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:110044300..110048942-chr9:110067094..110074281,11	MCF-7	breast:
2	chr9:110045521..110048079-chr9:110251760..110253947,2	MCF-7	breast:
3	chr9:110045113..110046713-chr9:110046851..110048527,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136826	Chromatin interaction
ENSG00000119318	Chromatin interaction

Extended variants
information (count: 107 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs10113916	0.84[CHB][hapmap]
rs10119641	0.84[CHB][hapmap];0.83[EUR][1000 genomes]
rs10481632	0.84[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs10521083	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs10732368	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs10739232	0.87[CHB][hapmap]
rs10739236	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs10739237	0.82[ASN][1000 genomes]
rs10739238	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10759219	0.83[CHB][hapmap]
rs10759222	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs10759223	0.89[ASN][1000 genomes]
rs10759225	0.95[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs10759226	0.89[ASN][1000 genomes]
rs10816475	0.95[CHB][hapmap]
rs10816477	0.84[CHB][hapmap];0.85[AFR][1000 genomes]
rs10816483	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10816485	0.84[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs10816486	0.89[ASN][1000 genomes]
rs10816487	0.88[ASN][1000 genomes]
rs10816490	0.92[AFR][1000 genomes]
rs10816492	0.94[CHB][hapmap];0.81[ASN][1000 genomes]
rs10816493	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10978767	0.89[CHB][hapmap]
rs10978769	0.83[CHB][hapmap]
rs10978770	0.83[CHB][hapmap]
rs10978775	0.84[CHB][hapmap]
rs10978776	0.81[EUR][1000 genomes]
rs10978777	0.81[EUR][1000 genomes]
rs10978791	0.84[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs10978798	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12345455	0.84[CHB][hapmap];0.81[EUR][1000 genomes]
rs1323806	0.90[CHB][hapmap]
rs1323808	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs1323809	0.95[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs1408135	0.95[CHB][hapmap]
rs1535765	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1535766	0.83[CHB][hapmap]
rs1805329	0.84[CHB][hapmap]
rs1805332	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1805334	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[ASN][1000 genomes]
rs1805335	0.95[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs1886134	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs1969798	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1980725	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2005143	0.83[EUR][1000 genomes]
rs2147071	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2147072	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs2417783	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2417784	0.84[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs2417785	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs28534368	0.92[AFR][1000 genomes]
rs3818367	0.94[ASN][1000 genomes]
rs4278207	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4625087	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4978404	0.81[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4978406	1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs4978764	0.95[CHB][hapmap]
rs4978844	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4978849	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61701375	0.92[AFR][1000 genomes]
rs698475	0.84[CHB][hapmap]
rs7019341	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7025563	0.82[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs7029997	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7030169	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7030555	0.93[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7030631	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7031906	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7035611	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7035725	0.92[ASN][1000 genomes]
rs7036284	0.83[EUR][1000 genomes]
rs7038737	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7039041	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7040217	0.86[EUR][1000 genomes]
rs7041137	0.83[CHB][hapmap];0.86[EUR][1000 genomes]
rs7041497	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7043962	0.84[CHB][hapmap];1.00[JPT][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7046950	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs7852295	0.83[CHB][hapmap]
rs7856112	0.89[ASN][1000 genomes]
rs7856227	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7859769	0.89[ASN][1000 genomes]
rs7866312	0.83[CHB][hapmap]
rs7866353	0.84[CHB][hapmap]
rs7866797	0.83[CHB][hapmap]
rs7867544	0.89[CHB][hapmap]
rs7873745	0.80[EUR][1000 genomes]
rs817836	0.84[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs817838	0.85[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs817839	0.92[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs817840	0.84[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs817841	0.84[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs817843	0.89[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs817844	0.92[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs817845	0.92[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs817846	0.81[AFR][1000 genomes]
rs942291	0.84[CHB][hapmap];0.80[EUR][1000 genomes]
rs942292	0.94[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs942293	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9632893	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs9969728	0.84[CHB][hapmap];0.83[EUR][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	nsv869351	chr9:109593212-110191170	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv530948	chr9:109760752-110413602	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv831682	chr9:109937181-110075453	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv893698	chr9:109998563-110052660	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv508560	chr9:110006490-110060539	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110044200-110047600	Active TSS	Thymus	Thymus
2	chr9:110044200-110048200	Active TSS	H1 Cell Line	embryonic stem cell
3	chr9:110044400-110047400	Active TSS	iPS-18 Cell Line	embryonic stem cell
4	chr9:110044400-110047600	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr9:110044400-110047800	Active TSS	H9 Cell Line	embryonic stem cell
6	chr9:110044400-110048000	Active TSS	iPS-20b Cell Line	embryonic stem cell
7	chr9:110044400-110048200	Active TSS	HUES48 Cell Line	embryonic stem cell
8	chr9:110044400-110048200	Active TSS	Duodenum Smooth Muscle	Duodenum
9	chr9:110044400-110048400	Active TSS	Fetal Kidney	kidney
10	chr9:110044400-110048800	Active TSS	Pancreatic Islets	Pancreatic Islet
11	chr9:110044600-110047800	Bivalent/Poised TSS	HepG2	liver
12	chr9:110044600-110048000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
13	chr9:110044600-110048200	Active TSS	ES-I3 Cell Line	embryonic stem cell
14	chr9:110044600-110048200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr9:110044600-110048200	Active TSS	A549	lung
16	chr9:110044600-110048400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr9:110044600-110048400	Active TSS	GM12878-XiMat	blood
18	chr9:110044600-110049000	Active TSS	Right Ventricle	heart
19	chr9:110044800-110047600	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr9:110044800-110047600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr9:110044800-110047600	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr9:110044800-110047600	Active TSS	Fetal Intestine Small	intestine
23	chr9:110044800-110047600	Active TSS	Stomach Mucosa	stomach
24	chr9:110044800-110047800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr9:110044800-110048000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr9:110044800-110048000	Active TSS	Aorta	Aorta
27	chr9:110044800-110048200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr9:110044800-110048200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr9:110044800-110048200	Active TSS	Brain Inferior Temporal Lobe	brain
30	chr9:110044800-110048200	Active TSS	Fetal Brain Female	brain
31	chr9:110044800-110048200	Active TSS	Fetal Lung	lung
32	chr9:110044800-110048400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr9:110044800-110048400	Active TSS	HUES6 Cell Line	embryonic stem cell
34	chr9:110044800-110048400	Active TSS	iPS-15b Cell Line	embryonic stem cell
35	chr9:110044800-110048400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr9:110044800-110048400	Active TSS	Left Ventricle	heart
37	chr9:110044800-110048400	Active TSS	K562	blood
38	chr9:110044800-110048600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
39	chr9:110044800-110048600	Active TSS	Ovary	ovary
40	chr9:110044800-110048800	Active TSS	Psoas Muscle	Psoas
41	chr9:110044800-110048800	Active TSS	HSMMtube	muscle
42	chr9:110045000-110047400	Active TSS	Cortex derived primary cultured neurospheres	brain
43	chr9:110045000-110047600	Active TSS	HUES64 Cell Line	embryonic stem cell
44	chr9:110045000-110047600	Active TSS	Skeletal Muscle Male	skeletal muscle
45	chr9:110045000-110047600	Active TSS	HUVEC	blood vessel
46	chr9:110045000-110047800	Active TSS	Muscle Satellite Cultured Cells	--
47	chr9:110045000-110047800	Active TSS	NHEK	skin
48	chr9:110045000-110048000	Active TSS	Fetal Adrenal Gland	Adrenal Gland
49	chr9:110045000-110048000	Active TSS	Fetal Thymus	thymus
50	chr9:110045000-110048200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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