Variant report

Variant	rs2956146
Chromosome Location	chr15:33260701-33260702
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	chr15:33260502-33260701	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr15:33260572-33260958	SK-N-SH	brain:	n/a	n/a
3	POLR2A	chr15:33260676-33260826	SK-N-SH	brain:	n/a	n/a

Variant related genes	Relation type
ENSG00000212415	TF binding region

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs163835	0.86[ASN][1000 genomes]
rs2061881	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2597094	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2923052	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2923053	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2928021	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2930131	0.84[ASN][1000 genomes]
rs2956145	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2956147	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs343927	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs343933	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv456785	chr15:32926076-33352989	Genic enhancers Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv568913	chr15:32926076-33352989	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv903978	chr15:33144202-33308641	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv903979	chr15:33144202-33550256	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv1041609	chr15:33148035-33355999	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv542339	chr15:33148035-33355999	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv903980	chr15:33149087-33264201	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	nsv1052966	chr15:33149753-33541951	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
9	nsv542340	chr15:33149753-33541951	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
10	nsv568917	chr15:33167171-33304172	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
11	nsv903981	chr15:33207082-33550256	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
12	nsv568918	chr15:33244672-33446971	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33232800-33263400	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr15:33243800-33264400	Weak transcription	Gastric	stomach
3	chr15:33245200-33274800	Weak transcription	Thymus	Thymus
4	chr15:33249200-33262800	Weak transcription	Rectal Smooth Muscle	rectum
5	chr15:33249200-33277800	Weak transcription	Stomach Smooth Muscle	stomach
6	chr15:33249400-33263000	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr15:33250800-33263200	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr15:33251400-33262400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr15:33251600-33263000	Weak transcription	Colonic Mucosa	Colon
10	chr15:33251600-33272000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr15:33252000-33263600	Weak transcription	Stomach Mucosa	stomach
12	chr15:33252400-33270200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr15:33252400-33270800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr15:33254000-33261800	Weak transcription	Duodenum Mucosa	Duodenum
15	chr15:33254000-33267200	Weak transcription	NHLF	lung
16	chr15:33255600-33262000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr15:33256600-33263000	Weak transcription	Placenta	Placenta
18	chr15:33256600-33266800	Weak transcription	HSMM	muscle
19	chr15:33256800-33275400	Weak transcription	Pancreas	Pancrea
20	chr15:33257600-33265800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr15:33258000-33261400	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr15:33258400-33266800	Weak transcription	NHDF-Ad	bronchial
23	chr15:33258600-33270000	Weak transcription	Fetal Thymus	thymus
24	chr15:33258800-33261600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
25	chr15:33259400-33260800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr15:33259400-33263000	Weak transcription	Colon Smooth Muscle	Colon
27	chr15:33259600-33261400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr15:33259600-33261400	Strong transcription	Rectal Mucosa Donor 31	rectum
29	chr15:33259600-33266400	Weak transcription	HSMMtube	muscle
30	chr15:33259800-33261000	Strong transcription	Monocytes-CD14+_RO01746	blood
31	chr15:33260200-33261000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr15:33260400-33264400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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