Variant report

Variant	rs73580427
Chromosome Location	chr6:142683935-142683936
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:142683592..142686831-chr6:142690528..142693685,3	MCF-7	breast:
2	chr6:142621912..142626098-chr6:142682605..142686113,5	MCF-7	breast:
3	chr6:142683303..142685618-chr6:142695779..142698326,2	MCF-7	breast:
4	chr6:142659623..142661197-chr6:142681381..142684257,2	MCF-7	breast:
5	chr6:142675895..142678114-chr6:142681303..142684417,3	MCF-7	breast:
6	chr6:142622374..142624698-chr6:142682481..142685205,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112414	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs56674756	0.91[AFR][1000 genomes]
rs58758475	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59051385	0.85[AFR][1000 genomes]
rs60150871	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60185388	0.91[AFR][1000 genomes]
rs60199449	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60625761	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73578337	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73578347	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73578355	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73578363	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73580425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73580430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73580457	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73580470	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73580473	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73580474	0.91[AFR][1000 genomes]
rs73582544	0.91[AFR][1000 genomes]
rs73582555	0.91[AFR][1000 genomes]
rs73582556	0.91[AFR][1000 genomes]
rs73582558	0.91[AFR][1000 genomes]
rs73582562	0.91[AFR][1000 genomes]
rs73582566	0.91[AFR][1000 genomes]
rs73582567	0.91[AFR][1000 genomes]
rs73582568	0.91[AFR][1000 genomes]
rs73582569	0.85[AFR][1000 genomes]
rs73582571	0.85[AFR][1000 genomes]
rs73582577	0.85[AFR][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	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv830825	chr6:142585242-142752575	Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 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	chr6:142676800-142688600	Weak transcription	Fetal Heart	heart
2	chr6:142679400-142684800	Weak transcription	Fetal Brain Female	brain
3	chr6:142679400-142688200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:142679400-142693200	Weak transcription	Hela-S3	cervix
5	chr6:142681000-142695200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr6:142681200-142684000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr6:142681400-142684000	Enhancers	Placenta Amnion	Placenta Amnion
8	chr6:142682000-142684000	Enhancers	Liver	Liver
9	chr6:142682000-142684000	Enhancers	HUVEC	blood vessel
10	chr6:142682600-142694600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:142682800-142693600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr6:142682800-142694600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr6:142683000-142684000	Enhancers	HepG2	liver
14	chr6:142683200-142693400	Weak transcription	HSMM	muscle
15	chr6:142683400-142693800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr6:142683600-142684600	Weak transcription	Osteobl	bone
17	chr6:142683600-142684800	Weak transcription	Fetal Brain Male	brain
18	chr6:142683600-142693200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr6:142683800-142687400	Weak transcription	Fetal Lung	lung
20	chr6:142683800-142688200	Enhancers	A549	lung
21	chr6:142683800-142688600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr6:142683800-142688600	Weak transcription	NHLF	lung
23	chr6:142683800-142691400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr6:142683800-142693200	Weak transcription	HMEC	breast
25	chr6:142683800-142693400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr6:142683800-142693400	Weak transcription	Fetal Intestine Large	intestine
27	chr6:142683800-142693400	Weak transcription	Fetal Intestine Small	intestine
28	chr6:142683800-142693600	Weak transcription	Placenta	Placenta

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