Variant report

Variant	rs12099667
Chromosome Location	chr12:63291652-63291653
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	chr12:63273431..63275241-chr12:63290276..63292669,2	MCF-7	breast:
2	chr12:63291380..63293253-chr12:63327047..63329993,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000111110	Chromatin interaction
ENSG00000252660	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1088467	1.00[ASN][1000 genomes]
rs12308434	1.00[EUR][1000 genomes]
rs163681	1.00[EUR][1000 genomes]
rs56654926	1.00[ASN][1000 genomes]
rs574678	1.00[ASN][1000 genomes]
rs60154663	1.00[EUR][1000 genomes]
rs619480	1.00[ASN][1000 genomes]
rs654228	1.00[ASN][1000 genomes]
rs668823	1.00[ASN][1000 genomes]
rs680680	1.00[ASN][1000 genomes]
rs681594	1.00[ASN][1000 genomes]
rs682414	1.00[ASN][1000 genomes]
rs682886	1.00[ASN][1000 genomes]
rs699594	1.00[EUR][1000 genomes]
rs74097040	1.00[EUR][1000 genomes]
rs7960001	1.00[EUR][1000 genomes]
rs7961102	1.00[EUR][1000 genomes]
rs7969071	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3415227	chr12:63228121-63591615	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv899161	chr12:63275017-63311148	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv899162	chr12:63279750-63334242	Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
4	nsv899163	chr12:63288343-63325988	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:63271600-63294400	Weak transcription	Ovary	ovary
2	chr12:63281000-63293000	Weak transcription	Left Ventricle	heart
3	chr12:63281200-63293600	Weak transcription	Gastric	stomach
4	chr12:63282200-63295400	Weak transcription	Lung	lung
5	chr12:63286200-63293600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr12:63286400-63293400	Weak transcription	A549	lung
7	chr12:63286800-63291800	Weak transcription	Primary hematopoietic stem cells	blood
8	chr12:63286800-63291800	Weak transcription	Brain Cingulate Gyrus	brain
9	chr12:63287400-63293000	Weak transcription	Stomach Mucosa	stomach
10	chr12:63287400-63309000	Weak transcription	Pancreas	Pancrea
11	chr12:63287600-63292000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr12:63287800-63316400	Weak transcription	Fetal Intestine Small	intestine
13	chr12:63289400-63293000	Weak transcription	Placenta	Placenta
14	chr12:63289400-63293400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr12:63289600-63293400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr12:63289600-63293800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr12:63289600-63294600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr12:63289600-63294600	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr12:63289600-63294600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr12:63289600-63306600	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr12:63289800-63294600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr12:63289800-63294800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr12:63291200-63294200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr12:63291400-63291800	Enhancers	Right Ventricle	heart
25	chr12:63291400-63292000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr12:63291400-63292800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
27	chr12:63291400-63293400	Enhancers	HepG2	liver
28	chr12:63291400-63295000	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr12:63291400-63295600	Enhancers	Brain Angular Gyrus	brain
30	chr12:63291400-63295600	Enhancers	Brain Anterior Caudate	brain
31	chr12:63291400-63297400	Enhancers	Brain Substantia Nigra	brain
32	chr12:63291600-63291800	Flanking Bivalent TSS/Enh	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr12:63291600-63292600	Enhancers	Monocytes-CD14+_RO01746	blood
34	chr12:63291600-63294200	Enhancers	Primary neutrophils fromperipheralblood	blood
35	chr12:63291600-63295000	Enhancers	Primary monocytes fromperipheralblood	blood
36	chr12:63291600-63295200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr12:63291600-63295600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr12:63291600-63295600	Enhancers	Brain Hippocampus Middle	brain
39	chr12:63291600-63295800	Enhancers	Brain Inferior Temporal Lobe	brain

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