Variant report

Variant	rs11707194
Chromosome Location	chr3:143309141-143309142
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	chr3:143301280..143303910-chr3:143308205..143310957,2	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]
rs10935498	0.80[CEU][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1534161	0.83[ASW][hapmap]
rs1550509	0.88[CEU][hapmap];0.81[CHB][hapmap];0.89[TSI][hapmap];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs34224721	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.91[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34973048	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4839645	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6771556	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.91[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6773748	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6779887	0.88[ASW][hapmap]
rs6779888	0.88[ASW][hapmap];0.81[GIH][hapmap]
rs727114	0.88[CEU][hapmap];0.91[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[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	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv829745	chr3:143278512-143405626	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143277400-143310200	Weak transcription	Primary T helper cells PMA-I stimulated	--
2	chr3:143294400-143317800	Weak transcription	Brain Substantia Nigra	brain
3	chr3:143294800-143309400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:143296200-143313200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr3:143297600-143320000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr3:143297600-143339000	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr3:143298600-143312600	Weak transcription	Gastric	stomach
8	chr3:143300400-143336800	Weak transcription	Primary T cells from cord blood	blood
9	chr3:143302000-143311200	Weak transcription	Placenta	Placenta
10	chr3:143305000-143310600	Weak transcription	Pancreas	Pancrea
11	chr3:143305200-143312600	Weak transcription	Fetal Lung	lung
12	chr3:143305800-143309400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr3:143305800-143309600	Weak transcription	Fetal Intestine Large	intestine
14	chr3:143305800-143309600	Weak transcription	Fetal Intestine Small	intestine
15	chr3:143306000-143309400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr3:143306000-143309400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr3:143306000-143310400	Weak transcription	Stomach Mucosa	stomach
18	chr3:143306000-143314000	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr3:143306200-143310600	Weak transcription	Small Intestine	intestine
20	chr3:143306400-143311000	Weak transcription	Duodenum Mucosa	Duodenum
21	chr3:143307200-143313000	Weak transcription	Fetal Thymus	thymus
22	chr3:143308600-143310200	Enhancers	K562	blood
23	chr3:143308600-143310600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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