Variant report

Variant	rs62405997
Chromosome Location	chr6:80760846-80760847
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs12524041	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12524658	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12528075	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12528948	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12529133	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1550035	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17174951	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17175251	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17176133	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17254389	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17254634	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1801460	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1801465	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4547972	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs45495802	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4613770	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4642425	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs55956173	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56219628	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs56302322	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62405965	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62405967	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62405994	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62405995	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62405999	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62406015	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62406016	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7765797	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7769377	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028607	chr6:79853272-80767716	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv886307	chr6:80724666-80765111	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv886308	chr6:80734870-80765111	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:80715600-80763800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr6:80732800-80762600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr6:80751000-80764800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:80751000-80766200	Weak transcription	NHLF	lung
5	chr6:80752800-80763400	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr6:80753200-80765400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:80753200-80772200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr6:80753600-80765400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr6:80753800-80765800	Weak transcription	HSMM	muscle
10	chr6:80757000-80763400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:80757200-80763400	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr6:80757200-80763400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr6:80757400-80763400	Weak transcription	Thymus	Thymus
14	chr6:80757600-80766000	Weak transcription	Dnd41	blood
15	chr6:80760800-80761200	ZNF genes & repeats	Fetal Thymus	thymus

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