Variant report

Variant	rs12362815
Chromosome Location	chr11:16984663-16984664
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:16978286..16981863-chr11:16983113..16986432,3	K562	blood:
2	chr11:16983037..16985172-chr11:16987078..16988742,2	MCF-7	breast:
3	chr11:16975638..16979707-chr11:16982694..16985336,3	MCF-7	breast:
4	chr11:16983360..16985149-chr11:16987896..16990823,2	MCF-7	breast:
5	chr11:16981822..16987249-chr11:17034138..17037422,6	MCF-7	breast:
6	chr11:16975727..16978192-chr11:16983279..16985913,2	MCF-7	breast:
7	chr11:16980702..16983607-chr11:16983722..16985302,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166689	Chromatin interaction
ENSG00000184669	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10741714	0.88[EUR][1000 genomes]
rs10741715	0.88[EUR][1000 genomes]
rs10766361	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs10766363	0.86[EUR][1000 genomes]
rs10832702	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs10832704	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10832705	0.86[CEU][hapmap];0.86[EUR][1000 genomes]
rs11024080	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11024085	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11827202	0.86[EUR][1000 genomes]
rs17700056	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17773381	0.88[CEU][hapmap];0.88[EUR][1000 genomes]
rs1860026	0.86[EUR][1000 genomes]
rs4756877	0.86[CEU][hapmap];0.87[EUR][1000 genomes]
rs4757447	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs4757448	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4757455	0.88[CEU][hapmap];0.88[EUR][1000 genomes]
rs6486327	0.88[CEU][hapmap];0.87[EUR][1000 genomes]
rs7104003	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs7117795	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs7119088	0.86[EUR][1000 genomes]
rs7130314	0.86[CEU][hapmap];0.88[EUR][1000 genomes]
rs72865768	0.88[EUR][1000 genomes]
rs7934117	0.85[CEU][hapmap];0.88[EUR][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	nsv832077	chr11:16834545-17059176	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv7689	chr11:16945953-16990852	Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	8 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	chr11:16955600-16991000	Weak transcription	Right Atrium	heart
2	chr11:16968000-16989800	Weak transcription	Esophagus	oesophagus
3	chr11:16975400-16990600	Weak transcription	Spleen	Spleen
4	chr11:16978600-16987600	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr11:16978600-16988400	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr11:16981200-16987800	Weak transcription	Fetal Kidney	kidney
7	chr11:16981400-16989000	Weak transcription	Brain Anterior Caudate	brain
8	chr11:16981800-17002800	Weak transcription	Stomach Smooth Muscle	stomach
9	chr11:16982000-16985000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr11:16982000-16988200	Weak transcription	Lung	lung
11	chr11:16982200-16987000	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr11:16982200-16987600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr11:16982200-16987800	Weak transcription	Fetal Lung	lung
14	chr11:16982200-16987800	Weak transcription	Rectal Smooth Muscle	rectum
15	chr11:16982200-16999000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr11:16982200-17003800	Weak transcription	Right Ventricle	heart
17	chr11:16982400-16988200	Weak transcription	Liver	Liver
18	chr11:16982600-16987000	Weak transcription	Pancreas	Pancrea
19	chr11:16982600-16989000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr11:16982800-16985800	Strong transcription	Fetal Intestine Large	intestine
21	chr11:16982800-16987000	Weak transcription	Duodenum Mucosa	Duodenum
22	chr11:16983400-16984800	Strong transcription	Fetal Intestine Small	intestine
23	chr11:16983800-16988600	Weak transcription	HepG2	liver
24	chr11:16984000-16985000	Weak transcription	Stomach Mucosa	stomach
25	chr11:16984200-16984800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr11:16984200-16985000	Weak transcription	Gastric	stomach
27	chr11:16984400-16985200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr11:16984400-16985200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
29	chr11:16984400-16986000	Enhancers	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links