Variant report

Variant	rs540437
Chromosome Location	chr6:69525629-69525630
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs2207435	0.81[AFR][1000 genomes]
rs483076	0.81[AFR][1000 genomes]
rs492444	0.89[ASN][1000 genomes]
rs493606	0.81[AFR][1000 genomes]
rs502221	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs505031	0.81[AFR][1000 genomes]
rs525874	0.81[AFR][1000 genomes]
rs526501	0.81[AFR][1000 genomes]
rs528341	0.81[AFR][1000 genomes]
rs544495	0.81[AFR][1000 genomes]
rs556592	0.81[AFR][1000 genomes]
rs563952	0.81[AFR][1000 genomes]
rs566190	0.81[AFR][1000 genomes]
rs801260	0.94[ASN][1000 genomes]
rs801263	0.99[ASN][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	nsv886130	chr6:68950298-69531957	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv886131	chr6:69480628-69545903	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv886132	chr6:69487204-69610281	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69505600-69536000	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr6:69523000-69527400	Weak transcription	Brain Substantia Nigra	brain
3	chr6:69523400-69535200	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr6:69525200-69525800	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr6:69525400-69528800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr6:69525400-69534600	Weak transcription	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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