Variant report

Variant	rs8002469
Chromosome Location	chr13:53936313-53936314
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10507575	0.82[MEX][hapmap];0.90[TSI][hapmap]
rs12860364	0.82[MEX][hapmap];0.89[TSI][hapmap]
rs17058159	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2806957	0.82[MEX][hapmap];0.90[TSI][hapmap]
rs57076175	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61950261	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61950265	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61950266	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61950320	0.81[EUR][1000 genomes]
rs61952466	0.95[ASN][1000 genomes]
rs7335476	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74089354	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9563145	0.85[CEU][hapmap];0.90[TSI][hapmap]

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	nsv1050969	chr13:53665927-54064861	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1040236	chr13:53928195-53955060	Weak transcription Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1051184	chr13:53928195-53956469	Enhancers Weak transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs8002469	SUGT1	cis	brain	seeQTL

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:53935600-53937600	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr13:53936200-53937400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr13:53936200-53937800	Weak transcription	iPS-20b 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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