Variant report

Variant	rs3784309
Chromosome Location	chr15:72102096-72102097
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:72097461..72102477-chr15:72104726..72109263,4	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1074330	0.87[CEU][hapmap];0.87[GIH][hapmap];0.82[JPT][hapmap]
rs11072339	0.80[JPT][hapmap]
rs12902006	0.87[CEU][hapmap];0.87[GIH][hapmap];0.82[JPT][hapmap]
rs12916951	0.87[CEU][hapmap];0.87[GIH][hapmap];0.82[JPT][hapmap];0.86[MEX][hapmap]
rs16956273	0.82[CEU][hapmap]
rs2054601	0.80[CEU][hapmap];0.87[GIH][hapmap];0.82[JPT][hapmap];0.86[MEX][hapmap]
rs2246225	1.00[CEU][hapmap];0.94[GIH][hapmap];0.88[JPT][hapmap];0.81[EUR][1000 genomes]
rs2291278	0.94[JPT][hapmap]
rs2415120	0.88[YRI][hapmap]
rs2625529	0.87[CEU][hapmap];0.84[GIH][hapmap]
rs2723342	0.86[CEU][hapmap]
rs2723343	1.00[CEU][hapmap];0.87[GIH][hapmap];0.88[JPT][hapmap]
rs2742323	0.93[CEU][hapmap];0.84[GIH][hapmap];0.88[JPT][hapmap]
rs8178	0.83[CEU][hapmap]
rs8747	1.00[CEU][hapmap];0.90[GIH][hapmap];0.94[JPT][hapmap]
rs9120	0.87[CEU][hapmap];0.94[JPT][hapmap]

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	nsv904334	chr15:71737376-72177659	Strong transcription Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1036938	chr15:71948106-72272855	Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	esv3331306	chr15:72049818-72427559	Strong transcription ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	esv3433206	chr15:72049838-72427529	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv827383	chr15:72100044-72107239	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3784309	MYO9A	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72096000-72105600	Enhancers	Fetal Muscle Leg	muscle
2	chr15:72096200-72103400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:72098600-72104000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr15:72099200-72102600	Weak transcription	Fetal Intestine Large	intestine
5	chr15:72100000-72103400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr15:72100400-72112000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr15:72100600-72103000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr15:72100600-72103200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
9	chr15:72100600-72104000	Weak transcription	Spleen	Spleen
10	chr15:72100600-72104400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr15:72100600-72104800	Weak transcription	Lung	lung
12	chr15:72100600-72111000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr15:72100600-72113800	Weak transcription	Fetal Lung	lung
14	chr15:72100800-72102200	Enhancers	Fetal Heart	heart
15	chr15:72100800-72102600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr15:72100800-72104800	Weak transcription	HSMMtube	muscle
17	chr15:72100800-72111400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr15:72101200-72102800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr15:72101200-72105000	Weak transcription	Right Ventricle	heart
20	chr15:72101200-72112600	Weak transcription	Right Atrium	heart
21	chr15:72101400-72102800	Weak transcription	H1 Cell Line	embryonic stem cell

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