Variant report

Variant	rs10153942
Chromosome Location	chr2:189697061-189697062
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10048734	0.86[AFR][1000 genomes]
rs10153879	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10178402	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10205357	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10205533	1.00[YRI][hapmap]
rs12329212	0.88[AFR][1000 genomes]
rs13415010	0.84[AFR][1000 genomes]
rs13425426	0.84[AFR][1000 genomes]
rs13427060	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13431284	0.86[AFR][1000 genomes]
rs28460253	0.84[AFR][1000 genomes]
rs28623454	0.84[AFR][1000 genomes]
rs28644358	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28681308	0.84[AFR][1000 genomes]
rs28705877	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28711483	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6746601	0.84[AFR][1000 genomes]
rs6753283	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7589250	0.84[AFR][1000 genomes]
rs9808075	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9808167	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003974	chr2:189331760-189827814	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv875607	chr2:189579045-189711790	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1008847	chr2:189603961-189769705	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv997454	chr2:189615728-189770133	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv1002175	chr2:189615728-189776301	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:189694800-189697800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr2:189695400-189705000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

Quick Search:

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

what's new

Quick links