Variant report

Variant	rs6693540
Chromosome Location	chr1:62853417-62853418
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	chr1:62851538..62854000-chr1:62900356..62902478,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000162607	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10789110	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10889325	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10889326	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10889328	0.91[EUR][1000 genomes]
rs10889329	0.90[EUR][1000 genomes]
rs1413821	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1473754	1.00[ASN][1000 genomes]
rs17123603	0.87[ASN][1000 genomes]
rs1886829	1.00[ASN][1000 genomes]
rs2065701	0.91[EUR][1000 genomes]
rs2095403	1.00[ASN][1000 genomes]
rs2104448	0.91[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs3861942	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4514267	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4915615	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4915617	0.88[EUR][1000 genomes]
rs4915833	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4915834	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4915837	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs60459828	0.88[ASN][1000 genomes]
rs6587974	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs6587975	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6687215	0.88[AMR][1000 genomes]
rs6699962	0.86[AMR][1000 genomes]
rs72929746	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs7512888	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7543765	1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013582	chr1:62723703-62910632	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:62848000-62855400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr1:62848000-62871800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr1:62849800-62853600	Enhancers	Hela-S3	cervix
4	chr1:62850600-62855400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:62852000-62856600	Weak transcription	Fetal Muscle Leg	muscle
6	chr1:62852200-62854800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr1:62852400-62854600	Weak transcription	Brain Hippocampus Middle	brain
8	chr1:62852600-62853600	Enhancers	HepG2	liver
9	chr1:62852800-62856400	Weak transcription	Fetal Stomach	stomach

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