Variant report

Variant	rs9584560
Chromosome Location	chr13:98002934-98002935
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:97880112..97883032-chr13:98001738..98003324,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs16952071	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17190203	1.00[CEU][hapmap];0.88[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17190210	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17268915	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17268922	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2220971	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3825422	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4578507	0.83[CEU][hapmap]
rs55684003	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs59036109	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs59512800	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs59788734	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60452878	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs60805672	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72637476	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7318821	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7327210	0.88[EUR][1000 genomes]
rs7333641	0.95[CEU][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7358848	0.89[CEU][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8000986	0.91[CEU][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9300404	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9556704	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9582124	0.91[CEU][hapmap];0.84[AMR][1000 genomes]
rs9584547	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9584549	0.83[CEU][hapmap]
rs9584554	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9584555	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9584556	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9584559	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9584564	0.90[AMR][1000 genomes];0.95[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	nsv832694	chr13:97930561-98137882	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers 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	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:97982000-98009000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr13:97982600-98020800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr13:97986200-98003200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr13:97991600-98020800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr13:97992000-98006200	Weak transcription	Psoas Muscle	Psoas
6	chr13:97992800-98020800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr13:97994200-98016200	Weak transcription	NHDF-Ad	bronchial
8	chr13:97995000-98007400	Strong transcription	Primary B cells from peripheral blood	blood
9	chr13:97995200-98007400	Strong transcription	Primary T cells from cord blood	blood
10	chr13:97995200-98007800	Strong transcription	Monocytes-CD14+_RO01746	blood
11	chr13:97995200-98011000	Strong transcription	Placenta	Placenta
12	chr13:97995400-98050200	Weak transcription	Small Intestine	intestine
13	chr13:97995600-98005600	Strong transcription	Hela-S3	cervix
14	chr13:97996200-98019400	Weak transcription	GM12878-XiMat	blood
15	chr13:97996400-98003000	Weak transcription	Brain Germinal Matrix	brain
16	chr13:97996800-98003600	Strong transcription	Skeletal Muscle Female	skeletal muscle
17	chr13:97997400-98006400	Weak transcription	HMEC	breast
18	chr13:97997400-98007800	Strong transcription	Adipose Nuclei	Adipose
19	chr13:97997400-98011600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr13:97997400-98019000	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr13:97997600-98008400	Weak transcription	K562	blood
22	chr13:97998200-98003600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr13:97998400-98003200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr13:97998400-98007400	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr13:97998400-98015800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr13:97998600-98004600	Strong transcription	Brain Anterior Caudate	brain
27	chr13:97998600-98005000	Strong transcription	HUVEC	blood vessel
28	chr13:97998600-98006600	Strong transcription	Primary T cells fromperipheralblood	blood
29	chr13:97998600-98006600	Strong transcription	Rectal Mucosa Donor 31	rectum
30	chr13:97998600-98007400	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr13:97998600-98007600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr13:97998800-98003000	Strong transcription	Duodenum Mucosa	Duodenum
33	chr13:97998800-98003000	Strong transcription	Fetal Muscle Trunk	muscle
34	chr13:97998800-98003200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr13:97998800-98003200	Strong transcription	Osteobl	bone
36	chr13:97998800-98003800	Strong transcription	Placenta Amnion	Placenta Amnion
37	chr13:97998800-98004000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr13:97998800-98004200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr13:97998800-98004200	Strong transcription	Left Ventricle	heart
40	chr13:97998800-98005400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr13:97998800-98006000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr13:97998800-98006800	Strong transcription	Rectal Mucosa Donor 29	rectum
43	chr13:97999000-98003200	Strong transcription	Ovary	ovary
44	chr13:97999000-98003400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr13:97999000-98003800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr13:97999000-98003800	Strong transcription	Stomach Smooth Muscle	stomach
47	chr13:97999000-98004000	Strong transcription	Brain Angular Gyrus	brain
48	chr13:97999000-98004000	Strong transcription	Brain Hippocampus Middle	brain
49	chr13:97999000-98004000	Strong transcription	Rectal Smooth Muscle	rectum
50	chr13:97999000-98005000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links