Variant report

Variant	rs337588
Chromosome Location	chr9:101497501-101497502
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	chr9:101490049..101492032-chr9:101495969..101498022,2	MCF-7	breast:
2	chr9:101485653..101487563-chr9:101495414..101497916,2	K562	blood:

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10119228	0.94[ASN][1000 genomes]
rs10125255	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10739704	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10987230	1.00[CEU][hapmap]
rs10987234	1.00[CEU][hapmap]
rs10987293	1.00[CEU][hapmap]
rs10987843	0.93[ASN][1000 genomes]
rs1167771	1.00[CEU][hapmap]
rs1555520	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1555522	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs180038	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs180039	0.94[ASN][1000 genomes]
rs182877	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1930130	1.00[CEU][hapmap]
rs2058881	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2295922	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2778916	1.00[CEU][hapmap]
rs2778919	1.00[CEU][hapmap]
rs2779539	1.00[CEU][hapmap]
rs337527	1.00[CEU][hapmap]
rs337564	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs337565	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs337566	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs337567	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs337568	0.89[CHB][hapmap];0.91[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs337570	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs337571	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs337580	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs337583	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs337585	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs337586	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs337587	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs337589	0.90[CHB][hapmap];0.88[CHD][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs337590	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs371521	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4133240	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4133831	0.87[EUR][1000 genomes]
rs429562	0.87[EUR][1000 genomes]
rs439347	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs453409	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4742740	1.00[CEU][hapmap];0.84[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4742742	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743274	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4743277	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743279	0.91[ASN][1000 genomes]
rs4743280	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4743283	0.82[EUR][1000 genomes]
rs48418	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs507318	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6415847	0.90[CHB][hapmap];0.85[CHD][hapmap];0.86[GIH][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6415849	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs692824	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7029599	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7039118	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[GIH][hapmap];0.92[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs754222	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7846846	0.89[ASN][1000 genomes]
rs7861840	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7867234	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7867317	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9409306	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs967932	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv614936	chr9:101182698-101680380	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv893614	chr9:101340316-101671634	Enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv893615	chr9:101356515-101678036	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
4	esv2830198	chr9:101477500-101512140	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101486400-101513000	Weak transcription	Right Atrium	heart
2	chr9:101489000-101498200	Weak transcription	Brain Germinal Matrix	brain
3	chr9:101489200-101501000	Weak transcription	Primary hematopoietic stem cells	blood
4	chr9:101489400-101498200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr9:101489600-101497800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr9:101489600-101497800	Weak transcription	Fetal Thymus	thymus
7	chr9:101489800-101520800	Weak transcription	Fetal Brain Male	brain
8	chr9:101490200-101497600	Weak transcription	Primary B cells from peripheral blood	blood
9	chr9:101491000-101504400	Weak transcription	A549	lung
10	chr9:101491000-101505800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr9:101491000-101518000	Weak transcription	Thymus	Thymus
12	chr9:101492800-101499400	Strong transcription	Fetal Intestine Small	intestine
13	chr9:101492800-101505800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr9:101493000-101498400	Weak transcription	NHLF	lung
15	chr9:101493000-101507400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr9:101493400-101504400	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr9:101494000-101532600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr9:101494000-101535200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr9:101494200-101501200	Weak transcription	K562	blood
20	chr9:101494200-101505600	Weak transcription	Colon Smooth Muscle	Colon
21	chr9:101494200-101509000	Strong transcription	Primary T cells from cord blood	blood
22	chr9:101494200-101516800	Weak transcription	Psoas Muscle	Psoas
23	chr9:101494400-101499000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr9:101494400-101499400	Strong transcription	Fetal Stomach	stomach
25	chr9:101494400-101499400	Strong transcription	Stomach Smooth Muscle	stomach
26	chr9:101494400-101553000	Weak transcription	Fetal Heart	heart
27	chr9:101494600-101497800	Weak transcription	NHDF-Ad	bronchial
28	chr9:101494600-101498000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr9:101494600-101520800	Weak transcription	Fetal Kidney	kidney
30	chr9:101494800-101506200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr9:101495000-101498000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr9:101495000-101498200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr9:101495000-101499600	Strong transcription	Gastric	stomach
34	chr9:101495200-101498800	Strong transcription	H9 Cell Line	embryonic stem cell
35	chr9:101495200-101499600	Strong transcription	Aorta	Aorta
36	chr9:101495200-101499600	Strong transcription	Fetal Muscle Trunk	muscle
37	chr9:101495200-101499600	Strong transcription	Lung	lung
38	chr9:101495400-101499200	Strong transcription	Fetal Muscle Leg	muscle
39	chr9:101495400-101499400	Strong transcription	Placenta Amnion	Placenta Amnion
40	chr9:101495400-101504400	Weak transcription	HMEC	breast
41	chr9:101495400-101504400	Weak transcription	Osteobl	bone
42	chr9:101495600-101498600	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr9:101495600-101498800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr9:101495600-101498800	Strong transcription	Brain Hippocampus Middle	brain
45	chr9:101495600-101498800	Strong transcription	Brain Inferior Temporal Lobe	brain
46	chr9:101495600-101499000	Strong transcription	Fetal Intestine Large	intestine
47	chr9:101495600-101499200	Strong transcription	Ovary	ovary
48	chr9:101495600-101499400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr9:101495600-101499400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr9:101495600-101499400	Strong transcription	Adipose Nuclei	Adipose

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