Variant report

Variant	rs9497090
Chromosome Location	chr6:145136060-145136061
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10499237	1.00[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11751954	0.80[CEU][hapmap];0.85[AMR][1000 genomes]
rs11753714	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11754229	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11754249	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12525007	0.80[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.80[AMR][1000 genomes]
rs17074210	1.00[CEU][hapmap];0.83[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17074221	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17074224	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4143181	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4266507	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4419685	0.88[JPT][hapmap]
rs4895653	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4895656	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4896739	0.80[AMR][1000 genomes]
rs4896741	0.80[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4896746	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4896748	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62427228	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62427231	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62427233	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62427244	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62427245	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62427246	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62427251	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62427253	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6920589	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6922804	0.80[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7744118	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9497087	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9497089	0.96[YRI][hapmap];0.91[AFR][1000 genomes]
rs9497091	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9497092	0.92[YRI][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	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
3	nsv886740	chr6:145105354-145199259	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
4	nsv886741	chr6:145123326-145165362	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers	TF binding region Chromatin interactive region	1 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	chr6:145084000-145155800	Weak transcription	Right Ventricle	heart
2	chr6:145089600-145138400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr6:145090000-145136800	Weak transcription	Fetal Heart	heart
4	chr6:145091000-145145000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:145094400-145136800	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr6:145099600-145165800	Weak transcription	Small Intestine	intestine
7	chr6:145100000-145137600	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr6:145100400-145145000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr6:145110400-145137000	Strong transcription	Primary B cells from cord blood	blood
10	chr6:145115200-145155000	Weak transcription	Esophagus	oesophagus
11	chr6:145115800-145156600	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr6:145116000-145142000	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr6:145116000-145148600	Weak transcription	Placenta	Placenta
14	chr6:145116000-145154800	Weak transcription	Spleen	Spleen
15	chr6:145116000-145155800	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr6:145116200-145154400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr6:145116400-145155600	Weak transcription	Stomach Smooth Muscle	stomach
18	chr6:145116400-145169000	Weak transcription	Rectal Smooth Muscle	rectum
19	chr6:145117200-145137400	Strong transcription	Dnd41	blood
20	chr6:145117400-145175200	Strong transcription	Monocytes-CD14+_RO01746	blood
21	chr6:145117600-145148400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
22	chr6:145118200-145137000	Weak transcription	Psoas Muscle	Psoas
23	chr6:145119200-145155800	Weak transcription	Pancreas	Pancrea
24	chr6:145119600-145139600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr6:145120000-145141600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr6:145120000-145145800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:145120000-145148800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr6:145120000-145155000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
29	chr6:145120200-145145800	Weak transcription	Fetal Intestine Small	intestine
30	chr6:145120200-145145800	Weak transcription	Fetal Stomach	stomach
31	chr6:145120200-145148400	Weak transcription	Ovary	ovary
32	chr6:145120200-145156400	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr6:145120400-145145800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr6:145120600-145148200	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr6:145120600-145148400	Weak transcription	Duodenum Mucosa	Duodenum
36	chr6:145120600-145148800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
37	chr6:145120600-145154800	Weak transcription	Aorta	Aorta
38	chr6:145120800-145145000	Weak transcription	HSMMtube	muscle
39	chr6:145120800-145148400	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr6:145120800-145155800	Weak transcription	Thymus	Thymus
41	chr6:145126000-145148200	Weak transcription	HUVEC	blood vessel
42	chr6:145126600-145169400	Weak transcription	Stomach Mucosa	stomach
43	chr6:145127000-145147800	Weak transcription	Fetal Muscle Trunk	muscle
44	chr6:145127000-145148600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr6:145127600-145148400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr6:145130200-145136200	Strong transcription	Primary hematopoietic stem cells	blood
47	chr6:145130400-145137400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr6:145130600-145163800	Weak transcription	NHEK	skin
49	chr6:145130800-145147400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr6:145130800-145156800	Weak transcription	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links