Variant report

Variant	rs12800445
Chromosome Location	chr11:119595355-119595356
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:119565895..119567556-chr11:119593844..119596406,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10790339	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10892444	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10892445	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10892446	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11217426	0.86[EUR][1000 genomes]
rs11217429	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11217430	0.88[EUR][1000 genomes]
rs11217434	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11217437	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11217438	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11217440	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11217441	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11217442	0.81[EUR][1000 genomes]
rs11217448	0.80[EUR][1000 genomes]
rs11607610	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12418662	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12421434	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12421466	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12786505	0.81[EUR][1000 genomes]
rs12793075	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12796806	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12797914	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1876795	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2136420	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2136421	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2368936	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35248712	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3829260	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4245206	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4489755	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4505073	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4936496	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4938718	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4938719	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4938720	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58136657	0.81[EUR][1000 genomes]
rs6589770	0.81[EUR][1000 genomes]
rs73006720	0.81[EUR][1000 genomes]
rs7952366	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9666263	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898421	chr11:119499014-119631325	Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv898422	chr11:119518006-119601779	Bivalent Enhancer Enhancers Bivalent/Poised TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv898423	chr11:119541332-119659753	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1051769	chr11:119572865-119630769	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv1037739	chr11:119592989-119630641	Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:119574000-119597200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr11:119580800-119597000	Weak transcription	Lung	lung
3	chr11:119585200-119596600	Weak transcription	Primary B cells from cord blood	blood
4	chr11:119586400-119597600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr11:119588400-119596800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr11:119588600-119597400	Weak transcription	NH-A	brain
7	chr11:119589200-119596800	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr11:119589600-119595600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr11:119589600-119597400	Weak transcription	Liver	Liver
10	chr11:119591200-119596400	Enhancers	H1 Cell Line	embryonic stem cell
11	chr11:119591200-119596600	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr11:119591400-119595400	Enhancers	Brain Hippocampus Middle	brain
13	chr11:119591400-119596000	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr11:119591400-119596800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr11:119591400-119597400	Weak transcription	Right Ventricle	heart
16	chr11:119591600-119596000	Enhancers	Brain Angular Gyrus	brain
17	chr11:119591600-119597200	Genic enhancers	Fetal Intestine Small	intestine
18	chr11:119591800-119596800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr11:119591800-119597000	Enhancers	Rectal Mucosa Donor 31	rectum
20	chr11:119592200-119597200	Weak transcription	Fetal Kidney	kidney
21	chr11:119592200-119597400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr11:119592600-119597000	Weak transcription	Spleen	Spleen
23	chr11:119592800-119596000	Weak transcription	Left Ventricle	heart
24	chr11:119592800-119597000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr11:119592800-119597000	Weak transcription	Adipose Nuclei	Adipose
26	chr11:119593000-119595400	Enhancers	GM12878-XiMat	blood
27	chr11:119593000-119597000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr11:119593000-119597200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr11:119593200-119595400	Weak transcription	HUVEC	blood vessel
30	chr11:119593400-119596000	Enhancers	iPS-15b Cell Line	embryonic stem cell
31	chr11:119593400-119596000	Weak transcription	Brain Anterior Caudate	brain
32	chr11:119593400-119596400	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr11:119593400-119596800	Weak transcription	Colonic Mucosa	Colon
34	chr11:119593600-119597600	Weak transcription	Stomach Mucosa	stomach
35	chr11:119594000-119596400	Enhancers	HUES64 Cell Line	embryonic stem cell
36	chr11:119594000-119596800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr11:119594200-119595400	Enhancers	Brain Cingulate Gyrus	brain
38	chr11:119594200-119596000	Enhancers	iPS-18 Cell Line	embryonic stem cell
39	chr11:119594200-119596000	Enhancers	Brain Substantia Nigra	brain
40	chr11:119594200-119596600	Enhancers	HUES48 Cell Line	embryonic stem cell
41	chr11:119594200-119596600	Enhancers	Fetal Brain Female	brain
42	chr11:119594200-119597000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr11:119594200-119597200	Enhancers	Primary neutrophils fromperipheralblood	blood
44	chr11:119594400-119595400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
45	chr11:119594400-119595600	Enhancers	Rectal Mucosa Donor 29	rectum
46	chr11:119594400-119596000	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr11:119594400-119596800	Enhancers	ES-I3 Cell Line	embryonic stem cell
48	chr11:119594400-119597600	Enhancers	Fetal Intestine Large	intestine
49	chr11:119594600-119595800	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
50	chr11:119594600-119596800	Enhancers	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links