Variant report

Variant	rs3794490
Chromosome Location	chr15:59523541-59523542
allele	C/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	chr15:59523188-59523737	Hela-S3	cervix:	n/a	n/a
2	USF2	chr15:59523246-59523659	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr15:59523098-59525315	Hela-S3	cervix:	n/a	n/a

Variant related genes	Relation type
MYO1E	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12917076	0.87[YRI][hapmap]
rs17302233	0.81[ASN][1000 genomes]
rs2101395	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs74020322	0.81[ASN][1000 genomes]
rs8040324	0.95[ASN][1000 genomes]
rs8041229	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv1035868	chr15:59402426-59530594	Flanking Active TSS Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv833027	chr15:59474806-59608544	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv904272	chr15:59500577-59549018	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv904273	chr15:59518488-59567137	Weak transcription Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59468200-59528600	Weak transcription	Stomach Mucosa	stomach
2	chr15:59487800-59524400	Weak transcription	Small Intestine	intestine
3	chr15:59497000-59524800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr15:59500000-59524400	Weak transcription	Right Ventricle	heart
5	chr15:59500600-59524600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr15:59501200-59525600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr15:59502800-59525800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr15:59511400-59549200	Weak transcription	Colonic Mucosa	Colon
9	chr15:59514800-59524200	Weak transcription	Colon Smooth Muscle	Colon
10	chr15:59515000-59524400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr15:59515400-59523800	Weak transcription	Rectal Smooth Muscle	rectum
12	chr15:59515800-59566600	Weak transcription	Pancreas	Pancrea
13	chr15:59516400-59524600	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr15:59516600-59524400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr15:59516600-59529400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:59517000-59524200	Strong transcription	HSMM	muscle
17	chr15:59517000-59530200	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr15:59517000-59536600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr15:59517200-59524400	Weak transcription	Aorta	Aorta
20	chr15:59517200-59524400	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr15:59517200-59528600	Weak transcription	Monocytes-CD14+_RO01746	blood
22	chr15:59517200-59528800	Weak transcription	Primary B cells from cord blood	blood
23	chr15:59517200-59529000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr15:59517400-59524600	Weak transcription	Fetal Heart	heart
25	chr15:59517400-59529000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr15:59517400-59530000	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr15:59517600-59523800	Weak transcription	Lung	lung
28	chr15:59517600-59524600	Weak transcription	Brain Cingulate Gyrus	brain
29	chr15:59517600-59525000	Weak transcription	Spleen	Spleen
30	chr15:59517600-59528600	Weak transcription	HepG2	liver
31	chr15:59517600-59529000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr15:59517600-59546400	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr15:59517800-59524200	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr15:59517800-59524600	Weak transcription	Brain Anterior Caudate	brain
35	chr15:59517800-59528600	Weak transcription	Primary monocytes fromperipheralblood	blood
36	chr15:59517800-59564200	Weak transcription	Fetal Muscle Trunk	muscle
37	chr15:59518000-59528800	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr15:59518400-59523800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr15:59520000-59528800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr15:59520200-59525000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
41	chr15:59520600-59524200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr15:59521200-59524000	Weak transcription	HSMMtube	muscle
43	chr15:59521400-59524000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr15:59521600-59524000	Weak transcription	Left Ventricle	heart
45	chr15:59521600-59524400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr15:59521600-59524600	Weak transcription	Brain Angular Gyrus	brain
47	chr15:59521600-59534400	Weak transcription	Placenta	Placenta
48	chr15:59521600-59566400	Weak transcription	Psoas Muscle	Psoas
49	chr15:59522200-59524800	Enhancers	Fetal Brain Male	brain
50	chr15:59522800-59524000	Strong transcription	Osteobl	bone

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