Variant report

Variant	rs10490707
Chromosome Location	chr2:169666745-169666746
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	chr2:169665296..169667079-chr2:169667124..169668946,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163072	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs16855923	0.93[JPT][hapmap];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs16855947	0.93[JPT][hapmap];1.00[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2276666	0.93[JPT][hapmap];0.95[ASN][1000 genomes]
rs2433680	0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs2433681	0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs2461363	0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs3821115	0.93[JPT][hapmap];0.95[ASN][1000 genomes]
rs3843328	1.00[JPT][hapmap]
rs543262	0.93[JPT][hapmap];0.85[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	nsv915920	chr2:168851960-169696591	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv583599	chr2:169664227-169903096	Bivalent Enhancer Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:169656000-169666800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr2:169659000-169668200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr2:169659800-169672400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr2:169660000-169676000	Weak transcription	Fetal Muscle Trunk	muscle
5	chr2:169660000-169688200	Weak transcription	Placenta	Placenta
6	chr2:169661000-169666800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr2:169661000-169668200	Weak transcription	Ovary	ovary
8	chr2:169661200-169668600	Weak transcription	Duodenum Mucosa	Duodenum
9	chr2:169661400-169676800	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr2:169662000-169670000	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr2:169662200-169668400	Genic enhancers	K562	blood
12	chr2:169662200-169668800	Weak transcription	Stomach Mucosa	stomach
13	chr2:169662600-169672400	Weak transcription	Gastric	stomach
14	chr2:169662600-169673000	Weak transcription	Left Ventricle	heart
15	chr2:169662600-169675600	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr2:169662800-169667000	Weak transcription	Adipose Nuclei	Adipose
17	chr2:169662800-169669200	Weak transcription	Pancreas	Pancrea
18	chr2:169663200-169667800	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr2:169664400-169667000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr2:169664400-169672600	Weak transcription	Lung	lung
21	chr2:169665000-169667000	Weak transcription	Fetal Intestine Small	intestine
22	chr2:169665800-169667000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr2:169665800-169667000	Enhancers	Brain Anterior Caudate	brain
24	chr2:169665800-169667400	Enhancers	ES-I3 Cell Line	embryonic stem cell
25	chr2:169666000-169666800	Weak transcription	Brain Angular Gyrus	brain
26	chr2:169666000-169667200	Enhancers	HUES64 Cell Line	embryonic stem cell
27	chr2:169666000-169667600	Weak transcription	Fetal Intestine Large	intestine
28	chr2:169666600-169667000	Enhancers	HUES48 Cell Line	embryonic stem cell
29	chr2:169666600-169667000	Enhancers	iPS-15b Cell Line	embryonic stem cell
30	chr2:169666600-169667200	Enhancers	H9 Cell Line	embryonic stem cell
31	chr2:169666600-169667200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
32	chr2:169666600-169667200	Enhancers	Right Atrium	heart
33	chr2:169666600-169667200	Enhancers	Sigmoid Colon	Sigmoid Colon

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