Variant report

Variant	rs2798730
Chromosome Location	chr9:15373972-15373973
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:15372087..15374863-chr9:15401359..15403431,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10756660	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10756661	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10810384	1.00[ASN][1000 genomes]
rs10961982	1.00[CEU][hapmap]
rs1104616	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1140771	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12156541	1.00[EUR][1000 genomes]
rs2798729	1.00[ASN][1000 genomes]
rs2798749	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2804983	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2805013	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2805014	0.85[AMR][1000 genomes]
rs2996230	1.00[ASN][1000 genomes]
rs2997859	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2997864	1.00[EUR][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	nsv892624	chr9:15283761-15415461	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv517975	chr9:15286446-15534070	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv613650	chr9:15296119-15378449	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1015960	chr9:15296783-15380657	ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
6	nsv1030287	chr9:15332709-15458001	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15369000-15374800	Enhancers	Fetal Lung	lung
2	chr9:15370800-15374600	Enhancers	Fetal Intestine Large	intestine
3	chr9:15371000-15375000	Enhancers	Rectal Mucosa Donor 31	rectum
4	chr9:15372200-15374000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr9:15372400-15374800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr9:15372400-15375000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr9:15372600-15374600	Enhancers	Stomach Mucosa	stomach
8	chr9:15373000-15374000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr9:15373000-15374600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr9:15373200-15374400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr9:15373200-15375000	Enhancers	Rectal Mucosa Donor 29	rectum
12	chr9:15373200-15375200	Enhancers	HepG2	liver
13	chr9:15373400-15374800	Enhancers	Ovary	ovary
14	chr9:15373600-15374200	Enhancers	Colon Smooth Muscle	Colon
15	chr9:15373600-15374200	Enhancers	Fetal Kidney	kidney
16	chr9:15373600-15374800	Enhancers	Colonic Mucosa	Colon
17	chr9:15373600-15375000	Enhancers	Placenta	Placenta
18	chr9:15373600-15378000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr9:15373800-15374600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr9:15373800-15375200	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr9:15373800-15376400	Weak transcription	Thymus	Thymus

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