Variant report

Variant	rs12123457
Chromosome Location	chr1:215860464-215860465
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11120599	1.00[ASN][1000 genomes]
rs11120614	0.86[CHB][hapmap]
rs11120616	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs12021518	0.87[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1418693	0.94[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.96[TSI][hapmap]
rs1418696	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17025255	0.85[CHB][hapmap]
rs2797239	0.88[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.93[MEX][hapmap];0.93[TSI][hapmap]
rs2797245	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.88[MEX][hapmap];0.96[TSI][hapmap]
rs2797246	0.82[CHB][hapmap];0.84[JPT][hapmap]
rs2820680	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2820682	0.88[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap]
rs2820695	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];0.96[TSI][hapmap]
rs4449992	0.88[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap]
rs4638090	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap]
rs6656366	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs6674308	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430324	chr1:215649163-216082605	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv873171	chr1:215825167-215925167	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv2763680	chr1:215855883-215870683	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv549183	chr1:215860464-215861757	Inactive region	Chromatin interactive region	n/a	n/a	diseases
5	esv2756291	chr1:215860464-215861879	Inactive region	Chromatin interactive region	n/a	n/a	diseases
6	nsv549184	chr1:215860464-215862899	Inactive region	Chromatin interactive region	n/a	n/a	diseases
7	nsv549185	chr1:215860464-215863578	Inactive region	Chromatin interactive region	n/a	n/a	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12123457	TRAF5	cis	parietal	SCAN

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

No data

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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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