Variant report

Variant	rs11680657
Chromosome Location	chr2:48475051-48475052
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:48444197..48446382-chr2:48474210..48475992,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000201010	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10495950	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11674317	0.84[EUR][1000 genomes]
rs11674475	0.89[EUR][1000 genomes]
rs11676381	0.89[EUR][1000 genomes]
rs11676925	0.90[EUR][1000 genomes]
rs11677205	0.84[EUR][1000 genomes]
rs11679518	0.83[EUR][1000 genomes]
rs11679956	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11680162	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11680968	0.84[EUR][1000 genomes]
rs11681876	0.93[EUR][1000 genomes]
rs11683689	0.90[EUR][1000 genomes]
rs11687276	0.84[EUR][1000 genomes]
rs11687401	0.83[EUR][1000 genomes]
rs11687461	0.83[EUR][1000 genomes]
rs11687670	0.93[EUR][1000 genomes]
rs11689736	0.89[EUR][1000 genomes]
rs11691493	0.89[EUR][1000 genomes]
rs11693267	0.89[EUR][1000 genomes]
rs11695923	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11889493	0.89[EUR][1000 genomes]
rs13431982	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17324965	0.90[EUR][1000 genomes]
rs17325048	0.93[EUR][1000 genomes]
rs17325209	0.99[EUR][1000 genomes]
rs17396793	0.88[EUR][1000 genomes]
rs17397094	1.00[EUR][1000 genomes]
rs2014675	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2840147	0.83[EUR][1000 genomes]
rs34135365	0.89[EUR][1000 genomes]
rs4530419	0.89[EUR][1000 genomes]
rs55802119	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs58032869	0.83[EUR][1000 genomes]
rs58136909	0.82[EUR][1000 genomes]
rs6730166	0.90[EUR][1000 genomes]
rs6733558	0.90[EUR][1000 genomes]
rs6747738	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6759056	0.89[EUR][1000 genomes]
rs7571905	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7581510	0.90[EUR][1000 genomes]
rs7583719	0.89[EUR][1000 genomes]
rs952468	1.00[EUR][1000 genomes]

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	nsv1009769	chr2:47972642-48509765	Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv535680	chr2:47972642-48509765	Genic enhancers Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv530831	chr2:48059709-48632317	Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
4	nsv519831	chr2:48072855-48566031	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv1003766	chr2:48102244-48559654	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv1005241	chr2:48413134-48493182	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	esv2762552	chr2:48413146-48493182	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv457407	chr2:48414735-48493182	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv581774	chr2:48414735-48493182	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv1001850	chr2:48421389-48492090	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv535681	chr2:48421389-48492090	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:48470800-48475400	Weak transcription	Right Atrium	heart
2	chr2:48471000-48476200	Weak transcription	Aorta	Aorta
3	chr2:48471800-48475400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr2:48472600-48475400	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr2:48473800-48476000	Enhancers	NHDF-Ad	bronchial
6	chr2:48474000-48476000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr2:48474200-48475400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr2:48474200-48475400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr2:48474200-48475400	Weak transcription	Fetal Muscle Trunk	muscle
10	chr2:48474200-48475400	Weak transcription	Fetal Muscle Leg	muscle
11	chr2:48474200-48475400	Weak transcription	Placenta	Placenta
12	chr2:48474200-48477200	Enhancers	Pancreatic Islets	Pancreatic Islet
13	chr2:48474400-48475400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr2:48474400-48475400	Weak transcription	HSMM	muscle
15	chr2:48474400-48475800	Weak transcription	Fetal Intestine Small	intestine
16	chr2:48474400-48476000	Weak transcription	Fetal Intestine Large	intestine
17	chr2:48474400-48476800	Enhancers	HepG2	liver
18	chr2:48474600-48475400	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr2:48474800-48476000	Enhancers	HSMMtube	muscle
20	chr2:48474800-48476000	Enhancers	Monocytes-CD14+_RO01746	blood
21	chr2:48474800-48477600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr2:48474800-48477600	Enhancers	Fetal Stomach	stomach
23	chr2:48474800-48479000	Enhancers	GM12878-XiMat	blood
24	chr2:48475000-48476000	Enhancers	NHLF	lung

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