Variant report

Variant	rs780023
Chromosome Location	chr2:125052071-125052072
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10496635	1.00[ASW][hapmap];0.87[CEU][hapmap];0.87[TSI][hapmap]
rs1170578	0.87[CHB][hapmap]
rs1170605	0.87[CEU][hapmap]
rs1170606	0.81[CEU][hapmap];0.90[MEX][hapmap];0.87[TSI][hapmap]
rs1170610	0.87[CEU][hapmap];0.90[MEX][hapmap];0.87[TSI][hapmap]
rs1170615	0.87[CEU][hapmap]
rs1170616	0.87[CEU][hapmap]
rs1170617	0.87[CEU][hapmap];0.90[MEX][hapmap];0.87[TSI][hapmap]
rs1170622	0.80[CEU][hapmap];0.84[EUR][1000 genomes]
rs1170623	0.86[CEU][hapmap];0.84[EUR][1000 genomes]
rs1170624	0.87[CEU][hapmap];0.90[MEX][hapmap];0.87[TSI][hapmap];0.84[EUR][1000 genomes]
rs1170625	0.87[CEU][hapmap];0.84[EUR][1000 genomes]
rs1170627	0.87[CEU][hapmap];0.90[MEX][hapmap];0.87[TSI][hapmap]
rs1170628	0.87[CEU][hapmap];0.90[MEX][hapmap];0.87[TSI][hapmap]
rs1170631	0.86[CEU][hapmap]
rs1186396	0.85[JPT][hapmap]
rs2565770	0.88[ASN][1000 genomes]
rs2579816	0.87[CEU][hapmap]
rs2699362	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2699363	0.85[ASN][1000 genomes]
rs2699377	0.87[CEU][hapmap]
rs707498	0.96[ASN][1000 genomes]
rs779976	0.85[JPT][hapmap]
rs779977	0.85[JPT][hapmap]
rs779985	0.84[CHB][hapmap];0.80[JPT][hapmap]
rs779994	0.87[CEU][hapmap]
rs779995	0.80[JPT][hapmap]
rs779997	0.85[JPT][hapmap]
rs780020	0.94[CHB][hapmap];0.97[CHD][hapmap];0.85[JPT][hapmap];0.98[ASN][1000 genomes]
rs780024	1.00[ASN][1000 genomes]
rs780025	0.94[CHB][hapmap];0.85[JPT][hapmap];1.00[ASN][1000 genomes]
rs780026	0.89[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs780027	0.88[ASN][1000 genomes]
rs780028	0.88[ASN][1000 genomes]
rs780029	0.94[CHB][hapmap];0.84[JPT][hapmap];0.88[ASN][1000 genomes]
rs780030	0.94[CHB][hapmap];0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs780031	0.94[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs780032	0.94[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs780033	0.94[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap];0.90[ASN][1000 genomes]
rs780034	0.84[CHB][hapmap];0.97[CHD][hapmap];0.94[ASN][1000 genomes]
rs780035	0.94[ASN][1000 genomes]
rs780040	0.96[EUR][1000 genomes]
rs780044	0.85[JPT][hapmap]
rs780050	0.94[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap];0.96[ASN][1000 genomes]
rs780051	0.85[ASN][1000 genomes]
rs780052	0.93[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs796643	0.94[CHB][hapmap];1.00[CHD][hapmap];0.85[JPT][hapmap]
rs796644	0.94[CHB][hapmap];0.85[JPT][hapmap]
rs809053	0.96[EUR][1000 genomes]
rs810513	1.00[ASN][1000 genomes]
rs891410	0.87[CEU][hapmap]
rs9646914	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv874989	chr2:124892592-125176030	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv874990	chr2:125038678-125099924	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs780023	CLASP1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:125051800-125053600	Weak transcription	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links