Variant report

Variant	rs1515294
Chromosome Location	chr2:180583633-180583634
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10177883	0.87[CEU][hapmap];0.83[CHB][hapmap];0.86[CHD][hapmap];0.88[GIH][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12467122	0.93[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap]
rs13407248	0.91[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1462208	0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap]
rs16866934	0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs16866936	0.87[CEU][hapmap];0.87[CHB][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.86[TSI][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16866942	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16866943	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16866944	0.94[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16866945	0.94[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16866953	0.94[CEU][hapmap];0.91[CHB][hapmap];0.87[JPT][hapmap]
rs17496658	0.83[CHB][hapmap];0.84[CHD][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes]
rs17499149	0.82[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17499156	0.87[CEU][hapmap];0.83[CHB][hapmap];0.84[CHD][hapmap];0.88[GIH][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.89[EUR][1000 genomes]
rs1964081	1.00[CEU][hapmap];0.87[CHB][hapmap];0.93[CHD][hapmap];0.94[GIH][hapmap];0.86[JPT][hapmap];0.92[MEX][hapmap];0.93[TSI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2840142	0.88[EUR][1000 genomes]
rs56142641	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58143036	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59431424	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs59642995	0.97[ASN][1000 genomes]
rs61200535	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73973703	0.91[EUR][1000 genomes]
rs746701	0.85[EUR][1000 genomes]
rs7559882	1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];0.87[JPT][hapmap];0.93[TSI][hapmap]
rs7582108	0.81[CEU][hapmap];0.87[CHB][hapmap];0.84[CHD][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7584651	1.00[ASN][1000 genomes]
rs7584968	1.00[ASN][1000 genomes]
rs881737	0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs908286	0.87[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002305	chr2:180568558-180812846	Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1515294	HOXD13	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:180582400-180585600	Weak transcription	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links