Variant report

Variant	rs13410569
Chromosome Location	chr2:110275142-110275143
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:110262467..110264874-chr2:110272739..110275186,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10166566	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10172287	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10172301	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10200930	0.92[AFR][1000 genomes]
rs10205396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11265637	0.83[AFR][1000 genomes]
rs13418274	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13418791	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28374561	0.82[ASW][hapmap];0.84[MKK][hapmap]
rs28639612	0.82[ASW][hapmap]
rs72936474	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936475	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936476	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936477	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936479	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936482	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72949197	0.81[AFR][1000 genomes]
rs72949199	0.81[AFR][1000 genomes]
rs72951003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72951006	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72951007	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72951010	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72951017	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv874777	chr2:109825516-110693317	Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv874780	chr2:110078080-110432886	Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:110257800-110287800	Weak transcription	Gastric	stomach
2	chr2:110267800-110287600	Weak transcription	Right Atrium	heart
3	chr2:110271200-110280400	Weak transcription	Fetal Kidney	kidney
4	chr2:110271200-110285400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr2:110271400-110278800	Weak transcription	Lung	lung
6	chr2:110272400-110276800	Weak transcription	HMEC	breast
7	chr2:110272800-110283000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr2:110273000-110275200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr2:110273400-110276000	Enhancers	Esophagus	oesophagus
10	chr2:110274000-110292800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr2:110274400-110276200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr2:110274400-110277400	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr2:110274600-110275400	Enhancers	Cortex derived primary cultured neurospheres	brain
14	chr2:110274600-110275600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr2:110274600-110276200	Enhancers	Fetal Thymus	thymus
16	chr2:110274800-110275400	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr2:110274800-110275400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
18	chr2:110274800-110275600	Flanking Active TSS	HepG2	liver
19	chr2:110274800-110275600	Enhancers	NHEK	skin
20	chr2:110274800-110275800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr2:110274800-110277000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr2:110275000-110275200	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr2:110275000-110275400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr2:110275000-110275400	Enhancers	Brain Germinal Matrix	brain
25	chr2:110275000-110275600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr2:110275000-110275600	Enhancers	Fetal Stomach	stomach
27	chr2:110275000-110279400	Weak transcription	Fetal Brain Female	brain
28	chr2:110275000-110285400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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