Variant report

Variant	rs2926178
Chromosome Location	chr1:216413725-216413726
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs12030122	1.00[MEX][hapmap]
rs17597445	1.00[CHB][hapmap]
rs17647012	1.00[CHD][hapmap]
rs17649639	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs17651066	1.00[ASW][hapmap];1.00[MKK][hapmap]
rs301743	1.00[CHB][hapmap]
rs301746	1.00[AFR][1000 genomes]
rs301748	1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs301749	1.00[ASW][hapmap];1.00[MKK][hapmap];1.00[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs301751	1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs301753	1.00[CHB][hapmap]
rs301755	1.00[CHB][hapmap]
rs301756	1.00[CHB][hapmap]
rs301757	1.00[CHB][hapmap]
rs301758	1.00[CHB][hapmap]
rs3106400	1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs368107	1.00[CHB][hapmap]
rs386851	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[MKK][hapmap]
rs400358	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[MEX][hapmap];1.00[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs403340	1.00[CHB][hapmap]
rs414373	1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs419767	1.00[AFR][1000 genomes]
rs421821	1.00[CHD][hapmap]
rs440416	1.00[AFR][1000 genomes]
rs446247	1.00[CHB][hapmap]
rs448588	1.00[CHB][hapmap]
rs449118	1.00[CHB][hapmap]
rs452747	1.00[CHB][hapmap]
rs453273	1.00[CHB][hapmap]
rs471271	1.00[CHB][hapmap]
rs594799	1.00[CHB][hapmap]
rs619629	1.00[AFR][1000 genomes]
rs619803	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs656949	1.00[CHB][hapmap]
rs658740	1.00[CHB][hapmap]
rs669825	1.00[AFR][1000 genomes]
rs682319	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap]
rs687476	1.00[CHB][hapmap];0.94[MKK][hapmap]
rs7413858	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap]
rs7532570	1.00[ASW][hapmap];1.00[MEX][hapmap]
rs7534889	1.00[MEX][hapmap]
rs9729724	1.00[CHB][hapmap]

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	nsv1006504	chr1:215890460-216642124	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv535288	chr1:215890460-216642124	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1006028	chr1:216268796-216432545	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv549199	chr1:216384908-216814702	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2926178	GAP43	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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