Variant report

Variant	rs752487
Chromosome Location	chr6:165342777-165342778
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

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

rs_ID	r²[population]
rs10946040	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10946041	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10946042	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10946051	0.90[EUR][1000 genomes]
rs12189587	0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12203926	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13197155	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2322644	0.90[EUR][1000 genomes]
rs56169436	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57819836	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6455972	0.86[AMR][1000 genomes]
rs9347050	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9347946	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9355521	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9356303	0.83[EUR][1000 genomes]
rs9356318	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9365814	0.86[AMR][1000 genomes]
rs9365824	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][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	nsv605232	chr6:164994771-165401154	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv521153	chr6:165279393-165343557	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv886925	chr6:165319631-165705488	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	esv3323305	chr6:165342462-165347460	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:165333200-165346200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:165339600-165342800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:165340800-165344000	Active TSS	Brain Anterior Caudate	brain
4	chr6:165341200-165342800	Active TSS	Brain Angular Gyrus	brain
5	chr6:165341200-165342800	Active TSS	Brain Hippocampus Middle	brain
6	chr6:165341200-165343000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
7	chr6:165341200-165343200	Active TSS	Fetal Brain Female	brain
8	chr6:165341600-165343200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr6:165341600-165343200	Active TSS	Brain Substantia Nigra	brain
10	chr6:165341800-165343400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
11	chr6:165342200-165342800	Enhancers	Fetal Muscle Trunk	muscle
12	chr6:165342200-165343000	Enhancers	HSMM	muscle
13	chr6:165342200-165343200	Enhancers	Skeletal Muscle Female	skeletal muscle
14	chr6:165342200-165343400	Enhancers	Fetal Muscle Leg	muscle
15	chr6:165342600-165342800	Flanking Active TSS	Brain Germinal Matrix	brain
16	chr6:165342600-165343000	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
17	chr6:165342600-165343200	Flanking Active TSS	Brain Cingulate Gyrus	brain
18	chr6:165342600-165343200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr6:165342600-165343400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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