Variant report

Variant	rs10739988
Chromosome Location	chr9:97632814-97632815
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97621507..97626749-chr9:97626893..97633201,8	MCF-7	breast:
2	chr9:97545898..97547763-chr9:97631465..97634095,2	MCF-7	breast:
3	chr9:97626345..97628625-chr9:97631540..97633736,2	K562	blood:
4	chr9:97631226..97633221-chr9:97637766..97639575,2	MCF-7	breast:
5	chr9:97632109..97634488-chr9:97681689..97683575,2	MCF-7	breast:
6	chr9:97626766..97634519-chr9:97675095..97684236,17	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs10125566	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10217441	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10732407	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10733756	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10739990	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10739991	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10761360	1.00[ASN][1000 genomes]
rs10761362	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs10761363	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10821407	0.83[AMR][1000 genomes]
rs10821411	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10993386	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1113967	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12551506	0.84[AMR][1000 genomes]
rs12552838	0.84[AMR][1000 genomes]
rs12554043	0.84[AMR][1000 genomes]
rs12683896	0.84[AMR][1000 genomes]
rs1530331	0.83[AMR][1000 genomes]
rs1542107	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1542108	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16911834	0.84[AMR][1000 genomes]
rs1904201	0.81[AMR][1000 genomes]
rs191654	0.85[EUR][1000 genomes]
rs2026399	0.81[AMR][1000 genomes]
rs2095069	0.84[AMR][1000 genomes]
rs2099868	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2119953	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2165715	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2406897	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2406898	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2584805	0.85[EUR][1000 genomes]
rs2897523	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs356125	0.85[EUR][1000 genomes]
rs356128	0.85[EUR][1000 genomes]
rs356132	0.85[EUR][1000 genomes]
rs356133	0.85[EUR][1000 genomes]
rs356136	0.85[EUR][1000 genomes]
rs356139	0.85[EUR][1000 genomes]
rs356145	0.85[EUR][1000 genomes]
rs356147	0.85[EUR][1000 genomes]
rs356148	0.85[EUR][1000 genomes]
rs356149	0.85[EUR][1000 genomes]
rs365465	0.85[EUR][1000 genomes]
rs367319	0.85[EUR][1000 genomes]
rs3847311	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3886568	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3910730	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4332191	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs438742	0.85[EUR][1000 genomes]
rs448899	0.85[EUR][1000 genomes]
rs456276	0.85[EUR][1000 genomes]
rs457795	0.85[EUR][1000 genomes]
rs4743968	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743970	1.00[ASN][1000 genomes]
rs4743972	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4743973	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4744382	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744387	0.83[AMR][1000 genomes]
rs4744388	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744389	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4744402	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs555799	0.82[EUR][1000 genomes]
rs562605	0.85[EUR][1000 genomes]
rs60120	0.85[EUR][1000 genomes]
rs6479569	0.85[EUR][1000 genomes]
rs6479575	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6479576	0.83[AMR][1000 genomes]
rs6479577	1.00[ASN][1000 genomes]
rs6479578	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6479579	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6479581	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6479582	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6479583	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66993340	0.81[AMR][1000 genomes]
rs67208365	0.85[EUR][1000 genomes]
rs67490803	0.84[AMR][1000 genomes]
rs68090960	0.85[EUR][1000 genomes]
rs7019602	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7022963	1.00[EUR][1000 genomes]
rs7025100	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7025934	0.81[AMR][1000 genomes]
rs7026714	0.83[AMR][1000 genomes]
rs7029570	0.84[AMR][1000 genomes]
rs7030703	0.84[AMR][1000 genomes]
rs7031637	0.88[AMR][1000 genomes]
rs7035166	0.83[AMR][1000 genomes]
rs7038519	0.83[AMR][1000 genomes]
rs7038891	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7044371	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7046900	0.84[AMR][1000 genomes]
rs7047478	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72748601	0.84[AMR][1000 genomes]
rs7341710	0.85[EUR][1000 genomes]
rs7852844	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7855781	0.85[EUR][1000 genomes]
rs7864389	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7867856	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7869736	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7870679	0.83[AMR][1000 genomes]
rs894426	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs894427	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs894428	0.83[AMR][1000 genomes]
rs9409805	0.85[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97625000-97637800	Weak transcription	Primary B cells from cord blood	blood
2	chr9:97626000-97638200	Enhancers	HSMM	muscle
3	chr9:97626000-97638400	Enhancers	HSMMtube	muscle
4	chr9:97627200-97638000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr9:97627400-97637800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr9:97628600-97633200	Enhancers	Placenta Amnion	Placenta Amnion
7	chr9:97628600-97641000	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr9:97629200-97634600	Enhancers	Breast Myoepithelial Primary Cells	Breast
9	chr9:97629200-97635800	Enhancers	HMEC	breast
10	chr9:97629200-97636000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr9:97629600-97635200	Enhancers	Placenta	Placenta
12	chr9:97629800-97633200	Weak transcription	Fetal Muscle Trunk	muscle
13	chr9:97630000-97638400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr9:97630000-97645000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr9:97630200-97633600	Enhancers	NH-A	brain
16	chr9:97630200-97634000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:97630200-97634400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr9:97630200-97636800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr9:97630200-97637600	Enhancers	Osteobl	bone
20	chr9:97630200-97638000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr9:97630200-97638200	Enhancers	Muscle Satellite Cultured Cells	--
22	chr9:97630200-97638200	Enhancers	NHDF-Ad	bronchial
23	chr9:97630200-97640800	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr9:97630600-97636800	Enhancers	Fetal Heart	heart
25	chr9:97630600-97637800	Weak transcription	Primary hematopoietic stem cells	blood
26	chr9:97630600-97643600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr9:97630800-97633200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr9:97630800-97633200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr9:97630800-97635000	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr9:97630800-97637000	Weak transcription	Fetal Intestine Large	intestine
31	chr9:97630800-97644200	Weak transcription	Adipose Nuclei	Adipose
32	chr9:97631000-97633200	Weak transcription	Pancreas	Pancrea
33	chr9:97631000-97634400	Enhancers	Skeletal Muscle Female	skeletal muscle
34	chr9:97631000-97635000	Weak transcription	Rectal Smooth Muscle	rectum
35	chr9:97631000-97635400	Weak transcription	Fetal Intestine Small	intestine
36	chr9:97631000-97637000	Weak transcription	Brain Substantia Nigra	brain
37	chr9:97631000-97637200	Weak transcription	Rectal Mucosa Donor 29	rectum
38	chr9:97631000-97637600	Weak transcription	Duodenum Smooth Muscle	Duodenum
39	chr9:97631000-97637800	Weak transcription	Aorta	Aorta
40	chr9:97631000-97640000	Weak transcription	Brain Hippocampus Middle	brain
41	chr9:97631200-97633400	Weak transcription	Fetal Kidney	kidney
42	chr9:97631200-97634800	Weak transcription	Pancreatic Islets	Pancreatic Islet
43	chr9:97631600-97634600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
44	chr9:97631600-97635200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
45	chr9:97631800-97633200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr9:97631800-97634600	Enhancers	Primary T helper cells PMA-I stimulated	--
47	chr9:97631800-97634800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
48	chr9:97631800-97635000	Weak transcription	Colon Smooth Muscle	Colon
49	chr9:97631800-97637800	Weak transcription	Brain Cingulate Gyrus	brain
50	chr9:97631800-97645600	Weak transcription	Small Intestine	intestine

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