Variant report

Variant	rs17010069
Chromosome Location	chr12:83264218-83264219
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	chr12:83260146..83261680-chr12:83263667..83266615,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10466960	0.88[CEU][hapmap];0.88[JPT][hapmap];0.80[EUR][1000 genomes]
rs10506884	0.88[JPT][hapmap]
rs11115457	0.88[JPT][hapmap]
rs11115458	0.88[JPT][hapmap]
rs12300038	0.88[CEU][hapmap];0.88[JPT][hapmap];0.80[EUR][1000 genomes]
rs17010056	0.88[JPT][hapmap]
rs17010066	0.89[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1703105	0.89[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6539694	0.88[JPT][hapmap]
rs6539695	0.88[CEU][hapmap];0.88[JPT][hapmap]
rs7304237	0.88[CEU][hapmap];0.88[JPT][hapmap];0.80[EUR][1000 genomes]
rs7313758	0.88[JPT][hapmap]
rs7979960	0.88[JPT][hapmap]
rs9651971	0.88[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053093	chr12:82645292-83287809	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv541551	chr12:82645292-83287809	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv427917	chr12:82917031-83279712	Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	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
5	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
6	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
7	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
8	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
9	nsv430520	chr12:83166956-83271602	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
10	nsv437765	chr12:83230454-83271933	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	n/a
11	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:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:83242200-83289800	Weak transcription	Stomach Mucosa	stomach
2	chr12:83250000-83264600	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr12:83251400-83265000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr12:83252200-83273000	Weak transcription	Pancreas	Pancrea
5	chr12:83257800-83264400	Weak transcription	Fetal Brain Female	brain
6	chr12:83260400-83264400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr12:83261000-83268400	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr12:83262000-83264600	Weak transcription	Rectal Smooth Muscle	rectum
9	chr12:83262200-83265000	Weak transcription	Fetal Brain Male	brain
10	chr12:83262200-83272800	Weak transcription	Fetal Lung	lung
11	chr12:83262200-83278000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr12:83263400-83265600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr12:83263600-83269400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr12:83263800-83264600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr12:83263800-83264800	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr12:83263800-83264800	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr12:83263800-83264800	Enhancers	iPS-18 Cell Line	embryonic stem cell
18	chr12:83263800-83265000	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr12:83263800-83265000	Enhancers	HUES64 Cell Line	embryonic stem cell
20	chr12:83263800-83265000	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr12:83263800-83265200	Enhancers	Primary monocytes fromperipheralblood	blood
22	chr12:83264000-83264400	Enhancers	Monocytes-CD14+_RO01746	blood
23	chr12:83264000-83264800	Enhancers	H1 Cell Line	embryonic stem cell
24	chr12:83264000-83264800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr12:83264000-83264800	Enhancers	Stomach Smooth Muscle	stomach
26	chr12:83264000-83265000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
27	chr12:83264000-83265200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr12:83264000-83265200	Enhancers	iPS-15b Cell Line	embryonic stem cell
29	chr12:83264000-83265600	Enhancers	Fetal Heart	heart
30	chr12:83264000-83266200	Enhancers	Brain Angular Gyrus	brain
31	chr12:83264000-83266200	Enhancers	Brain Substantia Nigra	brain
32	chr12:83264000-83267800	Enhancers	Colon Smooth Muscle	Colon
33	chr12:83264200-83264400	Enhancers	Cortex derived primary cultured neurospheres	brain
34	chr12:83264200-83264400	Enhancers	Brain Inferior Temporal Lobe	brain
35	chr12:83264200-83264600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr12:83264200-83264600	Flanking Active TSS	Brain Germinal Matrix	brain
37	chr12:83264200-83264600	Enhancers	Small Intestine	intestine
38	chr12:83264200-83264800	Flanking Active TSS	Brain Cingulate Gyrus	brain
39	chr12:83264200-83264800	Active TSS	Brain Hippocampus Middle	brain
40	chr12:83264200-83264800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr12:83264200-83264800	Enhancers	Fetal Stomach	stomach
42	chr12:83264200-83265200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr12:83264200-83267200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr12:83264200-83268200	Enhancers	Brain Anterior Caudate	brain

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