Variant report

Variant	rs10851425
Chromosome Location	chr15:45742652-45742653
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr15:45742088-45742726	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:45740795..45743926-chr15:45878461..45880935,3	MCF-7	breast:
2	chr15:45693029..45695760-chr15:45741637..45746369,4	MCF-7	breast:

Variant related genes	Relation type
RNU7-5P	TF binding region
ENSG00000260170	Chromatin interaction
ENSG00000104164	Chromatin interaction
ENSG00000171766	Chromatin interaction
ENSG00000171763	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10152697	1.00[CHB][hapmap]
rs1153829	0.93[JPT][hapmap]
rs1153830	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs1153831	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs1153832	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.82[AMR][1000 genomes]
rs1288852	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1288861	1.00[CHB][hapmap]
rs1288863	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1288865	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16944629	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs16952731	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs1706799	0.86[CHB][hapmap]
rs17533716	0.86[CHB][hapmap]
rs17535381	1.00[CHB][hapmap]
rs17537244	0.93[CEU][hapmap];1.00[CHB][hapmap];0.99[EUR][1000 genomes]
rs1834689	0.85[YRI][hapmap];0.82[AFR][1000 genomes]
rs2088164	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs2433600	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs2433625	0.81[AFR][1000 genomes]
rs2453518	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2467861	0.84[YRI][hapmap]
rs2486279	0.85[YRI][hapmap]
rs2486287	1.00[CHB][hapmap]
rs4448883	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs56273246	0.99[EUR][1000 genomes]
rs56327050	0.93[EUR][1000 genomes]
rs56937414	0.99[EUR][1000 genomes]
rs56967490	0.96[EUR][1000 genomes]
rs6493154	0.82[CEU][hapmap];0.86[JPT][hapmap]
rs6493157	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs6493158	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs7165838	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs7169748	1.00[CEU][hapmap]
rs7170090	1.00[CEU][hapmap]
rs7173983	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs72711259	0.99[EUR][1000 genomes]
rs8023437	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs8025407	1.00[CEU][hapmap]
rs8042811	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs9972498	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916374	chr15:45058112-45769052	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
2	nsv932147	chr15:45319178-45872076	Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
3	nsv569315	chr15:45446156-45772448	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
4	nsv469721	chr15:45608881-45788002	Strong transcription Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
5	nsv482380	chr15:45608881-45788002	Weak transcription Enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
6	nsv442701	chr15:45737096-45748752	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45738200-45746600	Weak transcription	Osteobl	bone
2	chr15:45740400-45743000	Enhancers	Placenta Amnion	Placenta Amnion
3	chr15:45740600-45743200	Bivalent Enhancer	HepG2	liver
4	chr15:45741000-45742800	Weak transcription	Small Intestine	intestine
5	chr15:45741000-45743600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr15:45741000-45746200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr15:45741000-45746400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr15:45741200-45743600	Weak transcription	HSMM	muscle
9	chr15:45741400-45744000	Active TSS	Colonic Mucosa	Colon
10	chr15:45741600-45743600	Active TSS	Rectal Mucosa Donor 29	rectum
11	chr15:45741600-45744200	Active TSS	Rectal Smooth Muscle	rectum
12	chr15:45742000-45742800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr15:45742000-45743200	Flanking Active TSS	Fetal Intestine Large	intestine
14	chr15:45742000-45743600	Active TSS	Stomach Mucosa	stomach
15	chr15:45742000-45744000	Enhancers	Esophagus	oesophagus
16	chr15:45742400-45743200	Bivalent/Poised TSS	Fetal Stomach	stomach
17	chr15:45742400-45743200	Active TSS	Gastric	stomach
18	chr15:45742400-45743200	Enhancers	Lung	lung
19	chr15:45742400-45743200	Active TSS	Sigmoid Colon	Sigmoid Colon
20	chr15:45742400-45743800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr15:45742400-45744600	Weak transcription	Liver	Liver
22	chr15:45742600-45742800	Enhancers	Fetal Intestine Small	intestine
23	chr15:45742600-45743000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr15:45742600-45743000	Active TSS	Duodenum Mucosa	Duodenum
25	chr15:45742600-45743400	Active TSS	Pancreas	Pancrea
26	chr15:45742600-45743600	Active TSS	Rectal Mucosa Donor 31	rectum
27	chr15:45742600-45746200	Weak transcription	Hela-S3	cervix

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