Variant report

Variant	rs3911400
Chromosome Location	chr12:64323497-64323498
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	chr12:64321248..64323629-chr12:64327689..64329232,2	MCF-7	breast:
2	chr12:64323494..64326603-chr12:64329507..64332954,4	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10437967	0.91[ASN][1000 genomes]
rs10784373	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10784374	0.95[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs10878094	0.96[ASN][1000 genomes]
rs11175208	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12230334	0.91[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs3911399	1.00[ASN][1000 genomes]
rs4763132	0.91[CEU][hapmap];0.87[EUR][1000 genomes]
rs7965316	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7973936	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs9668434	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[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	nsv1046836	chr12:63392391-64377169	Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
2	nsv832442	chr12:64228071-64442771	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:64298800-64334000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr12:64312200-64324200	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr12:64312400-64331600	Weak transcription	Right Atrium	heart
4	chr12:64312400-64385000	Weak transcription	Aorta	Aorta
5	chr12:64312800-64324200	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr12:64312800-64324600	Weak transcription	Fetal Lung	lung
7	chr12:64312800-64331200	Weak transcription	Brain Cingulate Gyrus	brain
8	chr12:64312800-64331400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr12:64313000-64334400	Weak transcription	Psoas Muscle	Psoas
10	chr12:64313200-64330600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr12:64313200-64331600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr12:64313200-64331600	Weak transcription	Left Ventricle	heart
13	chr12:64313200-64334400	Weak transcription	Pancreas	Pancrea
14	chr12:64314200-64331200	Weak transcription	Brain Substantia Nigra	brain
15	chr12:64316600-64338400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr12:64317000-64324600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr12:64317000-64324800	Weak transcription	HSMMtube	muscle
18	chr12:64317200-64327800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr12:64319000-64331200	Weak transcription	Brain Anterior Caudate	brain
20	chr12:64319800-64324000	Weak transcription	Fetal Brain Female	brain
21	chr12:64319800-64331600	Weak transcription	Right Ventricle	heart
22	chr12:64321200-64324200	Weak transcription	Fetal Brain Male	brain
23	chr12:64322200-64324200	Enhancers	NHDF-Ad	bronchial
24	chr12:64322200-64327800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr12:64322400-64323600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr12:64322600-64323800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr12:64322600-64326000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr12:64322600-64326000	Enhancers	NHEK	skin
29	chr12:64322800-64323600	Enhancers	NHLF	lung
30	chr12:64322800-64324600	Enhancers	Muscle Satellite Cultured Cells	--
31	chr12:64322800-64325800	Enhancers	Osteobl	bone
32	chr12:64323000-64323600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr12:64323000-64324400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr12:64323000-64325200	Weak transcription	HSMM	muscle
35	chr12:64323000-64325400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr12:64323000-64325400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr12:64323000-64328000	Weak transcription	Lung	lung
38	chr12:64323000-64331200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr12:64323000-64333800	Weak transcription	Ovary	ovary
40	chr12:64323400-64323600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr12:64323400-64324600	Weak transcription	HMEC	breast
42	chr12:64323400-64324600	Weak transcription	NH-A	brain
43	chr12:64323400-64324800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr12:64323400-64331600	Weak transcription	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links