Variant report

Variant	rs2782920
Chromosome Location	chr6:102493027-102493028
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1034253	0.85[TSI][hapmap]
rs13191478	0.81[JPT][hapmap]
rs13195038	0.81[JPT][hapmap]
rs13199079	0.81[JPT][hapmap]
rs13200524	0.81[JPT][hapmap]
rs13203156	0.81[JPT][hapmap]
rs13208276	0.81[JPT][hapmap]
rs13218403	0.81[JPT][hapmap]
rs1335022	0.81[JPT][hapmap]
rs1335024	0.81[JPT][hapmap]
rs1335029	0.86[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs1335031	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs1335032	0.85[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap];0.83[AFR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1335033	0.85[CEU][hapmap];0.95[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];0.87[TSI][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1413965	0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap]
rs2023599	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs2399584	0.81[JPT][hapmap]
rs2518146	0.94[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs2518148	0.90[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2518150	1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap]
rs2782892	0.83[CEU][hapmap];0.88[TSI][hapmap]
rs2782916	0.85[CEU][hapmap]
rs2782917	0.87[AFR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2782922	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2782929	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2852607	0.85[JPT][hapmap]
rs2852608	0.86[CEU][hapmap];0.95[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap]
rs2852610	0.80[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2852611	1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap]
rs2852612	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2852619	0.83[CEU][hapmap]
rs7738614	0.81[JPT][hapmap]
rs7749722	0.81[JPT][hapmap]
rs7756449	0.81[JPT][hapmap]
rs9485585	0.81[JPT][hapmap]
rs9498801	0.81[JPT][hapmap]
rs995639	0.86[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs995640	0.90[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032499	chr6:102069885-102720998	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv470850	chr6:102343078-102595587	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv830744	chr6:102369761-102566737	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1022069	chr6:102470600-102598244	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv529294	chr6:102474505-103122745	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2782920	SFRS18	cis	cerebellum	SCAN
rs2782920	TPM2	trans	lymphoblastoid	seeQTL

Chromatin state (count:0 , 50 per page) page:

No data

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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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