Variant report

Variant	rs9390219
Chromosome Location	chr6:145099494-145099495
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	chr6:145088837..145090387-chr6:145098679..145100455,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11546879	0.82[JPT][hapmap]
rs13195905	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13198393	0.91[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs13202460	0.89[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap]
rs13208243	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs13210728	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13215581	0.90[CEU][hapmap];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2297844	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs2297845	0.95[CHB][hapmap];0.81[JPT][hapmap];0.80[EUR][1000 genomes]
rs2297846	0.89[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4131501	0.91[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs4143180	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4476850	0.91[CHB][hapmap];0.87[JPT][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4631314	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9321993	0.80[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9373428	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9373431	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs9376855	0.92[EUR][1000 genomes]
rs9376858	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9386082	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9386084	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9399506	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9403603	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9403610	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9403616	0.82[CHB][hapmap];0.82[JPT][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	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1032838	chr6:144978504-145110121	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv830833	chr6:145001310-145201143	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv1021098	chr6:145017386-145106441	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145040000-145114600	Weak transcription	NHLF	lung
2	chr6:145046000-145122200	Weak transcription	Colonic Mucosa	Colon
3	chr6:145047600-145115000	Weak transcription	Esophagus	oesophagus
4	chr6:145047600-145115000	Weak transcription	Rectal Smooth Muscle	rectum
5	chr6:145054400-145100000	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr6:145066200-145126200	Weak transcription	Stomach Mucosa	stomach
7	chr6:145067800-145115800	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr6:145068800-145115000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr6:145069800-145101800	Weak transcription	Aorta	Aorta
10	chr6:145072200-145101800	Weak transcription	Fetal Intestine Large	intestine
11	chr6:145073200-145105400	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr6:145075000-145108800	Strong transcription	Primary B cells from cord blood	blood
13	chr6:145080000-145115000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:145084000-145155800	Weak transcription	Right Ventricle	heart
15	chr6:145084200-145101000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr6:145085400-145119000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:145085800-145134800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr6:145086800-145115000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:145087400-145115000	Weak transcription	Gastric	stomach
20	chr6:145088000-145102000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr6:145089600-145138400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr6:145090000-145136800	Weak transcription	Fetal Heart	heart
23	chr6:145090400-145115000	Weak transcription	Brain Anterior Caudate	brain
24	chr6:145090800-145100000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr6:145090800-145100000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr6:145090800-145115400	Weak transcription	Fetal Brain Male	brain
27	chr6:145091000-145100000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr6:145091000-145105200	Weak transcription	HSMM	muscle
29	chr6:145091000-145107800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr6:145091000-145107800	Weak transcription	Ovary	ovary
31	chr6:145091000-145114400	Weak transcription	H1 Cell Line	embryonic stem cell
32	chr6:145091000-145114400	Weak transcription	NHDF-Ad	bronchial
33	chr6:145091000-145115000	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr6:145091000-145115000	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr6:145091000-145145000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr6:145091200-145117200	Weak transcription	Psoas Muscle	Psoas
37	chr6:145093400-145103400	Strong transcription	Primary B cells from peripheral blood	blood
38	chr6:145093400-145119800	Weak transcription	Fetal Intestine Small	intestine
39	chr6:145093800-145114800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr6:145094400-145136800	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr6:145095000-145114800	Weak transcription	Placenta	Placenta
42	chr6:145095000-145119000	Weak transcription	NH-A	brain
43	chr6:145095200-145115400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr6:145095200-145118800	Weak transcription	GM12878-XiMat	blood
45	chr6:145095800-145101800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr6:145096000-145099800	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr6:145096000-145118600	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr6:145096400-145100400	Enhancers	Primary neutrophils fromperipheralblood	blood
49	chr6:145096600-145105400	Weak transcription	Fetal Lung	lung
50	chr6:145096800-145114600	Weak transcription	Stomach Smooth Muscle	stomach

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