Variant report

Variant	rs12661223
Chromosome Location	chr6:107136458-107136459
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:107135242..107137861-chr6:107141740..107143313,2	K562	blood:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10485221	1.00[EUR][1000 genomes]
rs10499046	1.00[CEU][hapmap];0.83[JPT][hapmap]
rs11965826	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11970567	0.80[EUR][1000 genomes]
rs12111123	0.82[EUR][1000 genomes]
rs12523769	0.81[JPT][hapmap]
rs12524955	1.00[CEU][hapmap];0.92[JPT][hapmap]
rs12524961	1.00[CEU][hapmap]
rs12525004	0.84[JPT][hapmap]
rs12525311	0.92[JPT][hapmap]
rs12525436	1.00[CEU][hapmap];0.92[JPT][hapmap]
rs12526024	0.92[JPT][hapmap]
rs12527773	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs12528136	0.92[JPT][hapmap]
rs12528406	0.92[JPT][hapmap]
rs12529961	0.84[JPT][hapmap]
rs12530093	0.82[JPT][hapmap]
rs12663120	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs12665651	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17052232	0.82[EUR][1000 genomes]
rs17067226	1.00[CEU][hapmap]
rs17067245	1.00[CEU][hapmap]
rs17067371	1.00[CEU][hapmap]
rs17067393	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs17067395	0.84[JPT][hapmap]
rs17067428	0.92[JPT][hapmap]
rs17067432	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs17067435	0.92[JPT][hapmap]
rs17067443	0.84[JPT][hapmap]
rs17067445	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs17067469	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs17067613	1.00[CEU][hapmap];0.92[JPT][hapmap]
rs17067614	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs17567332	0.87[EUR][1000 genomes]
rs1979347	1.00[CEU][hapmap];0.90[JPT][hapmap]
rs2353035	1.00[CEU][hapmap]
rs2353041	1.00[CEU][hapmap]
rs28537731	0.82[EUR][1000 genomes]
rs34702989	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35913079	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3761800	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs3804339	1.00[CEU][hapmap];0.83[JPT][hapmap]
rs4363071	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs4946777	1.00[EUR][1000 genomes]
rs4946781	0.82[EUR][1000 genomes]
rs58169264	0.88[EUR][1000 genomes]
rs59742959	0.82[EUR][1000 genomes]
rs60838249	0.82[EUR][1000 genomes]
rs6914551	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6934849	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73511912	0.82[EUR][1000 genomes]
rs7357000	0.96[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	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:107134000-107139800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr6:107134400-107139600	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr6:107135400-107136600	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr6:107135800-107136800	Enhancers	Hela-S3	cervix
5	chr6:107135800-107137400	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr6:107136000-107136600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:107136000-107136800	Enhancers	GM12878-XiMat	blood
8	chr6:107136000-107137000	Enhancers	Primary B cells from cord blood	blood
9	chr6:107136000-107137000	Enhancers	Fetal Intestine Small	intestine
10	chr6:107136000-107137600	Enhancers	Primary B cells from peripheral blood	blood
11	chr6:107136000-107148200	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr6:107136200-107136800	Enhancers	Rectal Mucosa Donor 29	rectum
13	chr6:107136200-107136800	Enhancers	HMEC	breast
14	chr6:107136200-107137000	Active TSS	Liver	Liver
15	chr6:107136200-107137000	Enhancers	Stomach Mucosa	stomach
16	chr6:107136200-107138000	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr6:107136200-107139000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr6:107136200-107139000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr6:107136200-107139400	Weak transcription	Brain Anterior Caudate	brain
20	chr6:107136200-107140800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr6:107136400-107136600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:107136400-107136800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr6:107136400-107136800	Active TSS	Duodenum Mucosa	Duodenum
24	chr6:107136400-107136800	Flanking Active TSS	HepG2	liver
25	chr6:107136400-107136800	Flanking Active TSS	Osteobl	bone
26	chr6:107136400-107139000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr6:107136400-107139200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr6:107136400-107140600	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr6:107136400-107140800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links