Variant report

Variant	rs1020962
Chromosome Location	chr9:97790786-97790787
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97678393..97680086-chr9:97790321..97791837,2	MCF-7	breast:
2	chr9:97626084..97627897-chr9:97790026..97791698,2	MCF-7	breast:
3	chr9:97785037..97786966-chr9:97789243..97791413,3	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10217441	1.00[CEU][hapmap]
rs1038092	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10732407	1.00[CEU][hapmap]
rs10761362	1.00[CEU][hapmap]
rs10761371	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993471	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12553869	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12555128	1.00[JPT][hapmap]
rs12555829	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1542108	1.00[CEU][hapmap]
rs1564235	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1571896	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1571897	0.85[CHB][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16911834	1.00[JPT][hapmap]
rs16911856	1.00[JPT][hapmap]
rs1871220	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1888944	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1888945	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1888946	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2061798	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2061799	1.00[CEU][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2061801	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2104888	1.00[JPT][hapmap]
rs2306207	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs242448	1.00[JPT][hapmap]
rs356685	1.00[JPT][hapmap]
rs356686	1.00[JPT][hapmap]
rs3739748	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3780560	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs4332191	1.00[CEU][hapmap]
rs4743972	1.00[CEU][hapmap]
rs4743975	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743976	1.00[AMR][1000 genomes]
rs4743977	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743978	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743989	0.85[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs4744421	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744429	1.00[ASN][1000 genomes]
rs4744437	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4744440	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs475413	1.00[JPT][hapmap]
rs6479578	1.00[CEU][hapmap]
rs6479589	1.00[AMR][1000 genomes]
rs6479596	0.91[EUR][1000 genomes]
rs6479597	0.91[EUR][1000 genomes]
rs67134693	0.90[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7019602	1.00[CEU][hapmap]
rs7022739	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7022963	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs7023719	1.00[CEU][hapmap]
rs7025100	1.00[CEU][hapmap]
rs7039768	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7046900	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs72750335	0.96[ASN][1000 genomes]
rs72750346	0.96[ASN][1000 genomes]
rs72750351	0.96[ASN][1000 genomes]
rs72750359	0.96[ASN][1000 genomes]
rs72750367	1.00[ASN][1000 genomes]
rs72750373	1.00[ASN][1000 genomes]
rs73540087	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7867856	1.00[CEU][hapmap]
rs894426	1.00[CEU][hapmap]
rs9299427	0.83[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	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:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97770800-97810000	Weak transcription	Primary T cells from cord blood	blood
2	chr9:97773200-97793200	Weak transcription	Brain Germinal Matrix	brain
3	chr9:97777400-97794200	Weak transcription	Thymus	Thymus
4	chr9:97780600-97790800	Weak transcription	Fetal Brain Female	brain
5	chr9:97781200-97793600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr9:97781400-97793200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr9:97781400-97793600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr9:97782000-97792800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr9:97782600-97793600	Weak transcription	Primary hematopoietic stem cells	blood
10	chr9:97783600-97794000	Weak transcription	GM12878-XiMat	blood
11	chr9:97786200-97791800	Enhancers	Right Ventricle	heart
12	chr9:97787000-97794000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr9:97787600-97793000	Genic enhancers	HepG2	liver
14	chr9:97787800-97792800	Weak transcription	Spleen	Spleen
15	chr9:97787800-97793800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr9:97787800-97795800	Genic enhancers	Osteobl	bone
17	chr9:97788000-97791200	Weak transcription	Colonic Mucosa	Colon
18	chr9:97788000-97794800	Genic enhancers	Muscle Satellite Cultured Cells	--
19	chr9:97788200-97791000	Weak transcription	Hela-S3	cervix
20	chr9:97788200-97791200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr9:97788200-97792800	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr9:97788200-97793000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr9:97788200-97794400	Weak transcription	K562	blood
24	chr9:97788400-97791200	Weak transcription	Placenta	Placenta
25	chr9:97788400-97791200	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr9:97788400-97795800	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr9:97788600-97791200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr9:97788600-97791200	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr9:97788800-97791200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr9:97788800-97792200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr9:97788800-97792800	Weak transcription	Adipose Nuclei	Adipose
32	chr9:97788800-97795000	Weak transcription	Placenta Amnion	Placenta Amnion
33	chr9:97788800-97795800	Enhancers	Psoas Muscle	Psoas
34	chr9:97789000-97790800	Strong transcription	Fetal Intestine Small	intestine
35	chr9:97789000-97791400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr9:97789000-97793000	Weak transcription	Aorta	Aorta
37	chr9:97789000-97793000	Weak transcription	HUVEC	blood vessel
38	chr9:97789000-97794200	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr9:97789000-97794400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr9:97789000-97806200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr9:97789200-97791200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr9:97789200-97791200	Enhancers	Liver	Liver
43	chr9:97789200-97791400	Weak transcription	Fetal Kidney	kidney
44	chr9:97789200-97791400	Weak transcription	Small Intestine	intestine
45	chr9:97789800-97791600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr9:97789800-97792400	Enhancers	Fetal Lung	lung
47	chr9:97789800-97792800	Enhancers	Brain Substantia Nigra	brain
48	chr9:97789800-97792800	Enhancers	Fetal Heart	heart
49	chr9:97790000-97792000	Genic enhancers	NHEK	skin
50	chr9:97790000-97792200	Transcr. at gene 5' and 3'	A549	lung

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