Variant report

Variant	rs9388610
Chromosome Location	chr6:128305781-128305782
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11154433	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12055782	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13197257	0.91[EUR][1000 genomes]
rs13200150	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs2024557	1.00[CHB][hapmap];0.86[JPT][hapmap];0.93[ASN][1000 genomes]
rs2326670	0.86[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28360516	0.82[EUR][1000 genomes]
rs34601789	0.81[EUR][1000 genomes]
rs3903662	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3903663	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4563733	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6899650	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6905941	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs6936878	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7744108	1.00[CHB][hapmap];0.92[JPT][hapmap];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9375542	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9375543	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9375544	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9388612	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9402011	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv604642	chr6:128278798-128351143	Strong transcription Genic enhancers Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases
2	nsv7967	chr6:128304971-128315423	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128285600-128307400	Weak transcription	Aorta	Aorta
2	chr6:128287200-128309000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:128287600-128308600	Weak transcription	Esophagus	oesophagus
4	chr6:128288000-128307600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
5	chr6:128288600-128306800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr6:128288600-128321800	Weak transcription	Small Intestine	intestine
7	chr6:128289000-128431000	Weak transcription	Psoas Muscle	Psoas
8	chr6:128290000-128308200	Strong transcription	HepG2	liver
9	chr6:128292400-128306400	Strong transcription	Rectal Mucosa Donor 31	rectum
10	chr6:128292400-128307600	Strong transcription	Liver	Liver
11	chr6:128292600-128307000	Strong transcription	Duodenum Mucosa	Duodenum
12	chr6:128293600-128374400	Weak transcription	Pancreas	Pancrea
13	chr6:128293800-128307800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr6:128294000-128306200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr6:128294400-128330600	Weak transcription	NHDF-Ad	bronchial
16	chr6:128296000-128307000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr6:128296800-128307200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr6:128296800-128307600	Strong transcription	Fetal Intestine Large	intestine
19	chr6:128297200-128307200	Strong transcription	HSMMtube	muscle
20	chr6:128297400-128334000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr6:128297800-128308200	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr6:128297800-128312600	Weak transcription	Colonic Mucosa	Colon
23	chr6:128298000-128307400	Weak transcription	Fetal Brain Female	brain
24	chr6:128298000-128352600	Weak transcription	Rectal Smooth Muscle	rectum
25	chr6:128298200-128307200	Weak transcription	Fetal Kidney	kidney
26	chr6:128298200-128313800	Weak transcription	Colon Smooth Muscle	Colon
27	chr6:128298200-128334600	Weak transcription	Fetal Heart	heart
28	chr6:128299000-128306200	Weak transcription	Placenta	Placenta
29	chr6:128299000-128317200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr6:128299800-128305800	Weak transcription	Primary B cells from peripheral blood	blood
31	chr6:128300000-128307200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
32	chr6:128300000-128317000	Weak transcription	Primary T cells from cord blood	blood
33	chr6:128300400-128312800	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr6:128300600-128308600	Strong transcription	HSMM	muscle
35	chr6:128300800-128313000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr6:128300800-128326400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr6:128301000-128325200	Weak transcription	Stomach Smooth Muscle	stomach
38	chr6:128302000-128305800	Strong transcription	Rectal Mucosa Donor 29	rectum
39	chr6:128302000-128306000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr6:128302200-128306200	Strong transcription	Fetal Thymus	thymus
41	chr6:128302600-128306800	Weak transcription	Brain Germinal Matrix	brain
42	chr6:128302600-128308200	Strong transcription	NH-A	brain
43	chr6:128302600-128319600	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr6:128302600-128331400	Weak transcription	Gastric	stomach
45	chr6:128302800-128306000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr6:128302800-128306200	Weak transcription	Brain Anterior Caudate	brain
47	chr6:128302800-128306800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr6:128302800-128307400	Weak transcription	Thymus	Thymus
49	chr6:128302800-128308400	Weak transcription	Right Ventricle	heart
50	chr6:128302800-128309600	Weak transcription	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links