Variant report

Variant	rs1039878
Chromosome Location	chr3:68475128-68475129
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs17830713	0.95[LWK][hapmap];0.87[MEX][hapmap];0.84[MKK][hapmap];0.83[YRI][hapmap];0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17831048	0.97[ASN][1000 genomes]
rs1912457	0.88[LWK][hapmap]
rs2136715	0.88[LWK][hapmap];0.83[MEX][hapmap]
rs4855469	0.80[MEX][hapmap]
rs4855472	1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4855477	0.86[LWK][hapmap];0.91[MEX][hapmap];0.86[YRI][hapmap]
rs6549122	0.88[LWK][hapmap];0.83[MEX][hapmap]
rs6767029	0.83[ASW][hapmap];0.96[CEU][hapmap];0.94[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6767035	0.84[CHB][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6785673	0.82[CEU][hapmap];0.87[MEX][hapmap]
rs876609	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs876610	0.95[LWK][hapmap];0.87[MEX][hapmap];0.84[MKK][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9310080	0.82[MEX][hapmap]
rs9822547	0.91[MEX][hapmap]
rs9822557	0.91[MEX][hapmap]
rs9842711	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9850187	0.82[CEU][hapmap];0.95[LWK][hapmap];0.87[MEX][hapmap];0.84[MKK][hapmap];0.83[YRI][hapmap];0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834721	chr3:68365963-68526394	Weak transcription Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv1001320	chr3:68451209-68475128	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
3	nsv1003779	chr3:68470899-68517125	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:68469800-68477400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:68474400-68475200	Enhancers	Placenta Amnion	Placenta Amnion
3	chr3:68475000-68479400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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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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