Variant report

Variant	rs12674052
Chromosome Location	chr7:96132827-96132828
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11773399	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12670576	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4503034	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62470039	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62470040	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6465509	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][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	nsv888756	chr7:95937098-96343665	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv831064	chr7:96107530-96289042	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12674052	GNGT1	cis	cerebellum	SCAN
rs12674052	DLX6	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:96132400-96133400	Enhancers	HUES64 Cell Line	embryonic stem cell
2	chr7:96132600-96133200	Flanking Active TSS	Liver	Liver
3	chr7:96132800-96133200	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr7:96132800-96133200	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr7:96132800-96133400	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr7:96132800-96133400	Enhancers	iPS-18 Cell Line	embryonic stem cell

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Input of quick search could be:

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

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