Variant report

Variant	rs12900167
Chromosome Location	chr15:76028581-76028582
allele	C/T
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	chr15:76028553-76028662	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:76028521..76029026-chr15:79032945..79033869,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000256530	TF binding region
ENSG00000260288	TF binding region

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10163112	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10519109	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11852712	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11854305	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11858818	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12898509	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12899163	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12899303	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12900007	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12903661	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12904654	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12905062	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12905730	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13329104	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1823175	0.85[ASN][1000 genomes]
rs1850261	0.85[ASN][1000 genomes]
rs1964473	0.84[ASN][1000 genomes]
rs1964474	0.83[ASN][1000 genomes]
rs1996302	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1996303	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2002668	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2004630	0.83[ASN][1000 genomes]
rs2004920	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2009508	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2010392	0.86[ASN][1000 genomes]
rs2017312	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2290484	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2405718	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2405719	0.80[AMR][1000 genomes]
rs2405882	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28404806	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28541422	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28615348	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28651447	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28657001	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28688252	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28695212	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28695716	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28744558	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28833005	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28837134	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34243492	0.84[ASN][1000 genomes]
rs34402412	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34469290	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34571038	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34605750	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34611707	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34941412	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35019194	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35135316	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35136767	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35147271	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35411779	0.87[ASN][1000 genomes]
rs35575236	0.84[AMR][1000 genomes]
rs35745834	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35842909	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs36057011	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3845233	0.84[ASN][1000 genomes]
rs3845234	0.84[ASN][1000 genomes]
rs3850092	0.85[ASN][1000 genomes]
rs3861184	0.85[ASN][1000 genomes]
rs4503758	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55744943	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57905971	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60214227	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs66838310	0.84[ASN][1000 genomes]
rs67908345	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71403504	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71403505	0.83[AMR][1000 genomes]
rs71462532	0.82[AMR][1000 genomes]
rs7163633	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7165531	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7181595	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs74026532	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8026234	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8027311	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8028002	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8037672	0.88[AMR][1000 genomes]
rs8041390	0.82[AMR][1000 genomes]
rs8041670	0.82[AMR][1000 genomes]

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	esv3445070	chr15:75623136-76045948	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
2	nsv531903	chr15:75889302-76342128	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
3	nsv527186	chr15:75924443-76107730	Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	69 gene(s)	inside rSNPs	diseases
4	nsv904392	chr15:75930757-76039262	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
5	nsv904394	chr15:75948671-76039262	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	nsv904396	chr15:75961518-76071105	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:76013800-76029800	Weak transcription	HSMM	muscle
2	chr15:76020600-76030200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr15:76021000-76030200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr15:76021000-76030200	Weak transcription	HMEC	breast
5	chr15:76021400-76029600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr15:76022000-76028800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr15:76024200-76029400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr15:76024200-76029400	Weak transcription	Fetal Brain Female	brain
9	chr15:76024400-76030400	Weak transcription	Primary B cells from cord blood	blood
10	chr15:76024600-76030200	Weak transcription	Brain Hippocampus Middle	brain
11	chr15:76024800-76029600	Weak transcription	Brain Germinal Matrix	brain
12	chr15:76024800-76030400	Weak transcription	Primary hematopoietic stem cells	blood
13	chr15:76025000-76030200	Weak transcription	NHDF-Ad	bronchial
14	chr15:76025000-76030400	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr15:76025200-76028800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr15:76025200-76029200	Weak transcription	Brain Angular Gyrus	brain
17	chr15:76025200-76030200	Weak transcription	Colonic Mucosa	Colon
18	chr15:76025200-76030200	Weak transcription	Fetal Heart	heart
19	chr15:76025200-76030200	Weak transcription	Fetal Intestine Large	intestine
20	chr15:76025200-76030400	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr15:76025200-76030400	Weak transcription	Right Atrium	heart
22	chr15:76025400-76028600	Weak transcription	Esophagus	oesophagus
23	chr15:76025400-76028800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr15:76025400-76029400	Weak transcription	Adipose Nuclei	Adipose
25	chr15:76025400-76029600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr15:76025400-76030200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr15:76025400-76030200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr15:76025400-76030200	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr15:76025400-76030200	Weak transcription	K562	blood
30	chr15:76025400-76030400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr15:76025600-76028600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr15:76025600-76028800	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr15:76025600-76028800	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr15:76025600-76028800	Weak transcription	Stomach Mucosa	stomach
35	chr15:76025600-76029400	Weak transcription	Fetal Brain Male	brain
36	chr15:76025600-76029600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr15:76025600-76029600	Weak transcription	Liver	Liver
38	chr15:76025600-76029800	Weak transcription	HUES48 Cell Line	embryonic stem cell
39	chr15:76025600-76030200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr15:76025600-76030200	Weak transcription	Primary T helper cells PMA-I stimulated	--
41	chr15:76025600-76030200	Weak transcription	Brain Cingulate Gyrus	brain
42	chr15:76025600-76030200	Weak transcription	Duodenum Mucosa	Duodenum
43	chr15:76025600-76030200	Weak transcription	Fetal Lung	lung
44	chr15:76025600-76030200	Weak transcription	Ovary	ovary
45	chr15:76025600-76030200	Weak transcription	Pancreas	Pancrea
46	chr15:76025600-76030200	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr15:76025600-76030200	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr15:76025600-76030200	Weak transcription	A549	lung
49	chr15:76025600-76030200	Weak transcription	Hela-S3	cervix
50	chr15:76025600-76030400	Weak transcription	Cortex derived primary cultured neurospheres	brain

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