Variant report

Variant	rs61853976
Chromosome Location	chr10:45399242-45399243
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	chr10:45398629..45401075-chr10:45411159..45413605,2	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs12772980	0.85[EUR][1000 genomes]
rs1325161	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1332624	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1332626	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17415835	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17416363	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17507375	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17507956	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1977584	0.86[EUR][1000 genomes]
rs34346133	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs58414517	0.87[EUR][1000 genomes]
rs61852546	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61853972	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61853973	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61853975	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7074794	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73277463	0.84[EUR][1000 genomes]
rs7903148	1.00[AMR][1000 genomes];0.95[EUR][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	nsv517161	chr10:45210690-45416256	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv831844	chr10:45228791-45407762	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv831845	chr10:45300268-45460395	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv831846	chr10:45322236-45556370	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:45395800-45399400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr10:45397400-45399600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr10:45397800-45399400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr10:45397800-45399400	Enhancers	Fetal Brain Female	brain
5	chr10:45397800-45399600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr10:45398000-45399400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr10:45398000-45399600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr10:45398000-45399600	Enhancers	Fetal Muscle Leg	muscle
9	chr10:45398400-45399400	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr10:45398400-45399400	Enhancers	Pancreas	Pancrea
11	chr10:45398400-45399600	Enhancers	Fetal Thymus	thymus
12	chr10:45398400-45400800	Enhancers	Fetal Kidney	kidney
13	chr10:45398600-45399400	Enhancers	Fetal Muscle Trunk	muscle
14	chr10:45398600-45403400	Weak transcription	Fetal Lung	lung
15	chr10:45398600-45406800	Weak transcription	Right Ventricle	heart
16	chr10:45399000-45399400	Enhancers	Primary T cells from cord blood	blood
17	chr10:45399000-45403200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr10:45399000-45403200	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr10:45399200-45399400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr10:45399200-45400800	Weak transcription	Fetal Stomach	stomach
21	chr10:45399200-45403200	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr10:45399200-45406200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr10:45399200-45406400	Weak transcription	Right Atrium	heart

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