Variant report

Variant	rs9409589
Chromosome Location	chr9:97539619-97539620
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97537649..97550005-chr9:97763285..97775962,36	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10733756	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10761360	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10761363	0.96[AFR][1000 genomes]
rs10821407	0.83[AMR][1000 genomes]
rs12553916	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1382411	0.91[AFR][1000 genomes]
rs1382412	0.91[AFR][1000 genomes]
rs1530331	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1542108	0.96[AFR][1000 genomes]
rs16911856	0.83[AFR][1000 genomes]
rs17355875	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs191654	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2099868	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2165715	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs242260	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2584805	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2675168	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs356125	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs356128	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs356132	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs356133	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs356136	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs356139	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs356145	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs356147	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs356148	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs356149	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs365465	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs367319	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3887267	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3910730	0.96[AFR][1000 genomes]
rs397783	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs397806	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs41316526	0.91[AFR][1000 genomes]
rs422502	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs438742	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs448899	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs456276	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs457795	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4612413	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4743968	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4743970	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4743972	0.96[AFR][1000 genomes]
rs4743973	0.96[AFR][1000 genomes]
rs4744382	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4744387	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4744388	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4744402	0.88[AFR][1000 genomes]
rs555799	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56198429	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs562605	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56317174	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs58281499	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs60120	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs60553517	0.87[AFR][1000 genomes]
rs61086657	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs6479569	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6479575	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6479576	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6479577	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6479579	0.88[AFR][1000 genomes]
rs6479582	0.96[AFR][1000 genomes]
rs6479583	0.96[AFR][1000 genomes]
rs66495734	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs66642068	0.91[AFR][1000 genomes]
rs66710673	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs66863985	0.91[AFR][1000 genomes]
rs67208365	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs68090960	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs68091393	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7025934	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7026714	0.83[AMR][1000 genomes]
rs7035166	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7038519	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7038891	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7047478	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72747019	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7341710	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73532355	0.87[AFR][1000 genomes]
rs73536067	0.87[AFR][1000 genomes]
rs73536074	0.87[AFR][1000 genomes]
rs73538177	0.91[AFR][1000 genomes]
rs7855781	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7870679	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs894428	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9409805	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][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	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97512600-97540800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr9:97512600-97544600	Weak transcription	Psoas Muscle	Psoas
3	chr9:97519800-97544600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr9:97521800-97541200	Weak transcription	Right Ventricle	heart
5	chr9:97522400-97540400	Weak transcription	Fetal Heart	heart
6	chr9:97523400-97541400	Weak transcription	NHEK	skin
7	chr9:97523400-97544400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr9:97523400-97544400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr9:97523400-97545200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr9:97523400-97545200	Weak transcription	Liver	Liver
11	chr9:97523400-97545200	Weak transcription	Lung	lung
12	chr9:97523400-97545400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr9:97523400-97552600	Weak transcription	Dnd41	blood
14	chr9:97523400-97554000	Weak transcription	Primary T cells from cord blood	blood
15	chr9:97523400-97557800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr9:97523400-97563800	Weak transcription	Fetal Kidney	kidney
17	chr9:97523600-97540400	Weak transcription	A549	lung
18	chr9:97523600-97545000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr9:97523600-97545200	Weak transcription	Left Ventricle	heart
20	chr9:97523600-97549400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr9:97523600-97552600	Weak transcription	Thymus	Thymus
22	chr9:97523600-97554400	Weak transcription	Primary B cells from peripheral blood	blood
23	chr9:97523800-97544200	Weak transcription	Fetal Muscle Trunk	muscle
24	chr9:97524000-97541400	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr9:97524000-97541400	Weak transcription	Hela-S3	cervix
26	chr9:97524000-97544600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr9:97524000-97553200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr9:97524200-97554600	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr9:97524200-97554600	Weak transcription	Fetal Intestine Large	intestine
30	chr9:97526600-97549000	Weak transcription	Primary T cells fromperipheralblood	blood
31	chr9:97529800-97545000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr9:97530200-97551200	Weak transcription	Primary B cells from cord blood	blood
33	chr9:97530200-97563000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr9:97530600-97544400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr9:97531600-97563000	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr9:97531600-97563000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr9:97533800-97555000	Weak transcription	GM12878-XiMat	blood
38	chr9:97535200-97542800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr9:97535200-97547600	Weak transcription	HUES64 Cell Line	embryonic stem cell
40	chr9:97535400-97541200	Weak transcription	K562	blood
41	chr9:97535800-97542400	Weak transcription	Muscle Satellite Cultured Cells	--
42	chr9:97535800-97542600	Weak transcription	Osteobl	bone
43	chr9:97535800-97543000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr9:97535800-97544600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr9:97535800-97544600	Weak transcription	Fetal Lung	lung
46	chr9:97535800-97544600	Weak transcription	NHLF	lung
47	chr9:97535800-97545000	Weak transcription	Fetal Brain Female	brain
48	chr9:97535800-97552600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr9:97536000-97543000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr9:97536000-97545200	Weak transcription	Fetal Stomach	stomach

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