Variant report

Variant	rs36090286
Chromosome Location	chr15:42805981-42805982
allele	G/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	chr15:42805963-42805989	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
SNAP23	TF binding region

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs1044866	0.81[AFR][1000 genomes]
rs11541527	0.87[AFR][1000 genomes]
rs16973349	0.85[AFR][1000 genomes]
rs5009460	0.85[AFR][1000 genomes]
rs57249373	0.85[AFR][1000 genomes]
rs57349778	0.84[AFR][1000 genomes]
rs58122107	0.86[AFR][1000 genomes]
rs58562675	0.84[AFR][1000 genomes]
rs58952814	0.85[AFR][1000 genomes]
rs59058205	0.81[AFR][1000 genomes]
rs59091063	0.87[AFR][1000 genomes]
rs60060355	0.87[AFR][1000 genomes]
rs60168929	0.84[AFR][1000 genomes]
rs60606292	0.81[AFR][1000 genomes]
rs60697170	0.87[AFR][1000 genomes]
rs61368952	0.87[AFR][1000 genomes]
rs6493048	0.84[AFR][1000 genomes]
rs6493049	0.86[AFR][1000 genomes]
rs6493050	0.87[AFR][1000 genomes]
rs7172064	0.81[AFR][1000 genomes]
rs7172955	0.83[AFR][1000 genomes]
rs7173155	0.87[AFR][1000 genomes]
rs7178822	0.83[AFR][1000 genomes]
rs7181938	0.87[AFR][1000 genomes]
rs73404708	0.85[AFR][1000 genomes]
rs73404711	0.85[AFR][1000 genomes]
rs73404725	0.87[AFR][1000 genomes]
rs73404729	0.85[AFR][1000 genomes]
rs73404744	0.87[AFR][1000 genomes]
rs73404746	0.87[AFR][1000 genomes]
rs73404754	0.83[AFR][1000 genomes]
rs73404758	0.87[AFR][1000 genomes]
rs73404768	0.87[AFR][1000 genomes]
rs73404774	0.87[AFR][1000 genomes]
rs73404775	0.87[AFR][1000 genomes]
rs73404793	0.87[AFR][1000 genomes]
rs73404797	0.85[AFR][1000 genomes]
rs73406503	0.85[AFR][1000 genomes]
rs73406505	0.85[AFR][1000 genomes]
rs73406509	0.85[AFR][1000 genomes]
rs73406526	0.81[AFR][1000 genomes]
rs73406531	0.81[AFR][1000 genomes]
rs768118	0.85[AFR][1000 genomes]
rs8023948	0.87[AFR][1000 genomes]
rs8027207	0.87[AFR][1000 genomes]
rs8031383	0.85[AFR][1000 genomes]
rs8031883	0.87[AFR][1000 genomes]
rs8033555	0.87[AFR][1000 genomes]
rs8034001	0.81[AFR][1000 genomes]
rs8035877	0.87[AFR][1000 genomes]
rs8036927	0.85[AFR][1000 genomes]
rs8037277	0.85[AFR][1000 genomes]
rs8040624	0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049445	chr15:42239738-42830484	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	nsv542366	chr15:42239738-42830484	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
3	esv3334708	chr15:42664344-42827738	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv528725	chr15:42755555-43104406	Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42788400-42808000	Weak transcription	Esophagus	oesophagus
2	chr15:42788600-42806600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr15:42788600-42807200	Weak transcription	Fetal Kidney	kidney
4	chr15:42789000-42806400	Weak transcription	Thymus	Thymus
5	chr15:42789200-42806600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr15:42790600-42806600	Weak transcription	Stomach Smooth Muscle	stomach
7	chr15:42790600-42807200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr15:42790800-42809800	Weak transcription	Spleen	Spleen
9	chr15:42790800-42810000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr15:42790800-42821400	Weak transcription	Right Ventricle	heart
11	chr15:42791200-42809800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr15:42792400-42806600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr15:42792400-42807400	Weak transcription	HMEC	breast
14	chr15:42793000-42809800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr15:42793000-42835600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr15:42793600-42807400	Weak transcription	Brain Cingulate Gyrus	brain
17	chr15:42793800-42806400	Weak transcription	Pancreas	Pancrea
18	chr15:42793800-42837200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr15:42797400-42839800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr15:42797600-42807000	Weak transcription	Colonic Mucosa	Colon
21	chr15:42797600-42822200	Weak transcription	Small Intestine	intestine
22	chr15:42797600-42839400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr15:42797800-42806600	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr15:42798600-42808400	Weak transcription	Gastric	stomach
25	chr15:42799200-42839400	Weak transcription	Stomach Mucosa	stomach
26	chr15:42800400-42807200	Weak transcription	GM12878-XiMat	blood
27	chr15:42800800-42806400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr15:42800800-42806400	Weak transcription	Lung	lung
29	chr15:42801000-42809400	Weak transcription	Fetal Lung	lung
30	chr15:42801200-42807800	Weak transcription	Fetal Heart	heart
31	chr15:42801400-42806200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr15:42802200-42812000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr15:42802400-42839200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr15:42802600-42806200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr15:42802600-42811800	Strong transcription	Primary T helper cells fromperipheralblood	blood
36	chr15:42802600-42817400	Strong transcription	Primary B cells from peripheral blood	blood
37	chr15:42802800-42817200	Strong transcription	HUES48 Cell Line	embryonic stem cell
38	chr15:42803000-42810600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr15:42803200-42806600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr15:42803200-42806600	Weak transcription	NHDF-Ad	bronchial
41	chr15:42803200-42807000	Weak transcription	Left Ventricle	heart
42	chr15:42803200-42807200	Weak transcription	Fetal Brain Female	brain
43	chr15:42803200-42808000	Weak transcription	Psoas Muscle	Psoas
44	chr15:42803200-42809000	Weak transcription	NHLF	lung
45	chr15:42803200-42837200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr15:42803400-42808200	Weak transcription	Aorta	Aorta
47	chr15:42803600-42806600	Weak transcription	Ovary	ovary
48	chr15:42803600-42807200	Weak transcription	Brain Angular Gyrus	brain
49	chr15:42803600-42839400	Weak transcription	A549	lung
50	chr15:42803800-42806200	Weak transcription	Brain Inferior Temporal Lobe	brain

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