Variant report

Variant	rs11024063
Chromosome Location	chr11:16889852-16889853
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:16885665..16888585-chr11:16888891..16892967,5	MCF-7	breast:
2	chr11:16888585..16890832-chr11:16900532..16902308,3	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10766352	0.80[TSI][hapmap]
rs10766357	0.85[ASN][1000 genomes]
rs10832694	0.90[CHB][hapmap];0.89[CHD][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap];0.88[ASN][1000 genomes]
rs11024060	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11024066	0.86[CHB][hapmap];0.89[CHD][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs1860271	0.84[ASN][1000 genomes]
rs7109209	0.86[CHB][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs740624	0.82[TSI][hapmap]
rs991606	0.84[TSI][hapmap]

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	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11024063	INSC	cis	cerebellum	SCAN

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16863800-16892600	Weak transcription	Fetal Kidney	kidney
2	chr11:16872000-16895800	Weak transcription	Aorta	Aorta
3	chr11:16876600-16890800	Weak transcription	Colonic Mucosa	Colon
4	chr11:16876800-16898600	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr11:16877800-16890000	Weak transcription	Lung	lung
6	chr11:16877800-16892200	Weak transcription	Fetal Stomach	stomach
7	chr11:16877800-16899600	Weak transcription	Stomach Smooth Muscle	stomach
8	chr11:16878800-16890000	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr11:16882400-16894800	Weak transcription	Pancreas	Pancrea
10	chr11:16882400-16895800	Weak transcription	Gastric	stomach
11	chr11:16882600-16898400	Weak transcription	Ovary	ovary
12	chr11:16884600-16897600	Weak transcription	Brain Hippocampus Middle	brain
13	chr11:16884800-16897600	Weak transcription	Brain Anterior Caudate	brain
14	chr11:16884800-16900000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr11:16885000-16891600	Weak transcription	HSMM	muscle
16	chr11:16885000-16900200	Weak transcription	Stomach Mucosa	stomach
17	chr11:16885200-16891800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr11:16885200-16892400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr11:16885200-16894000	Weak transcription	Left Ventricle	heart
20	chr11:16885200-16894800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr11:16885200-16894800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr11:16885200-16902400	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr11:16885400-16894800	Weak transcription	Right Ventricle	heart
24	chr11:16885400-16900800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr11:16885600-16890000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr11:16885800-16890000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr11:16885800-16891600	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr11:16885800-16892000	Weak transcription	Rectal Smooth Muscle	rectum
29	chr11:16885800-16892800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr11:16886200-16891400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr11:16886800-16893000	Strong transcription	Fetal Intestine Small	intestine
32	chr11:16887200-16890000	Weak transcription	Esophagus	oesophagus
33	chr11:16887600-16892200	Strong transcription	Duodenum Mucosa	Duodenum
34	chr11:16888400-16891000	Strong transcription	Sigmoid Colon	Sigmoid Colon
35	chr11:16888800-16892200	Strong transcription	Liver	Liver
36	chr11:16888800-16892800	Genic enhancers	Fetal Heart	heart
37	chr11:16889200-16890000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr11:16889200-16891800	Strong transcription	HepG2	liver
39	chr11:16889200-16892600	Weak transcription	HMEC	breast
40	chr11:16889400-16891000	Strong transcription	Rectal Mucosa Donor 31	rectum
41	chr11:16889600-16890200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
42	chr11:16889600-16890400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr11:16889600-16891000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr11:16889600-16891800	Strong transcription	Fetal Intestine Large	intestine
45	chr11:16889800-16890200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr11:16889800-16890200	Strong transcription	Placenta	Placenta
47	chr11:16889800-16890400	Strong transcription	Adipose Nuclei	Adipose
48	chr11:16889800-16891000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links