Variant report

Variant	rs1682569
Chromosome Location	chr12:83331176-83331177
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:83331086..83333520-chr12:83336090..83338497,2	MCF-7	breast:

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10862503	1.00[JPT][hapmap]
rs1617114	0.92[EUR][1000 genomes]
rs1796156	0.86[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs1796167	0.82[CEU][hapmap]
rs2708001	0.87[CEU][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv521849	chr12:83013783-83991479	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv469490	chr12:83089431-83507269	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	nsv559542	chr12:83089431-83507269	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	esv2758315	chr12:83101045-83357621	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	esv2759911	chr12:83101045-83357621	Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv832472	chr12:83248283-83419753	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:83279000-83336400	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr12:83305800-83336800	Weak transcription	Fetal Stomach	stomach
3	chr12:83307800-83336800	Weak transcription	Fetal Lung	lung
4	chr12:83323600-83334400	Weak transcription	Fetal Heart	heart
5	chr12:83324800-83336800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr12:83325000-83346400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr12:83325600-83348000	Weak transcription	Colon Smooth Muscle	Colon
8	chr12:83325800-83336800	Weak transcription	Brain Substantia Nigra	brain
9	chr12:83326000-83340200	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr12:83327200-83334000	Weak transcription	Primary monocytes fromperipheralblood	blood
11	chr12:83328000-83334400	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr12:83329000-83336400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr12:83330600-83331200	Enhancers	Placenta Amnion	Placenta Amnion
14	chr12:83330600-83331400	Enhancers	Brain Hippocampus Middle	brain
15	chr12:83330800-83331200	Enhancers	Breast Myoepithelial Primary Cells	Breast
16	chr12:83330800-83331200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr12:83330800-83331200	Enhancers	Brain Anterior Caudate	brain
18	chr12:83331000-83331200	Enhancers	NHDF-Ad	bronchial
19	chr12:83331000-83331400	Enhancers	Brain Angular Gyrus	brain
20	chr12:83331000-83331400	Enhancers	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links