Variant report

Variant	rs6043596
Chromosome Location	chr20:15869271-15869272
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs3827081	0.80[CEU][hapmap];0.83[GIH][hapmap];0.94[MEX][hapmap];0.84[EUR][1000 genomes]
rs6034317	0.84[ASN][1000 genomes]
rs6034319	0.90[CEU][hapmap];0.94[MEX][hapmap];0.86[TSI][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6043590	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6043592	0.82[ASN][1000 genomes]
rs6043593	0.81[ASW][hapmap];0.90[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];0.96[GIH][hapmap];0.91[JPT][hapmap];0.94[MEX][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6043594	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6043605	0.81[ASW][hapmap]
rs6043606	0.81[ASW][hapmap]
rs6131736	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6135589	0.80[CEU][hapmap];0.88[GIH][hapmap];0.89[MEX][hapmap];0.85[EUR][1000 genomes]
rs6135590	0.80[CEU][hapmap];0.89[MEX][hapmap];0.82[EUR][1000 genomes]
rs6135591	0.90[CEU][hapmap];0.94[MEX][hapmap];0.86[TSI][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8118541	0.90[CEU][hapmap];0.81[AMR][1000 genomes];0.92[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	nsv869328	chr20:15325423-16213898	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv833929	chr20:15765372-15977337	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv3447866	chr20:15799286-16115291	Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:15856400-15869800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr20:15868400-15872000	Enhancers	HSMMtube	muscle
3	chr20:15868600-15871200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr20:15868800-15870200	Strong transcription	Primary B cells from cord blood	blood
5	chr20:15868800-15871400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr20:15869000-15870800	Enhancers	Brain Germinal Matrix	brain
7	chr20:15869000-15871400	Enhancers	iPS-20b Cell Line	embryonic stem cell
8	chr20:15869000-15871600	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr20:15869000-15872000	Enhancers	Fetal Muscle Leg	muscle
10	chr20:15869200-15870600	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr20:15869200-15870800	Enhancers	H9 Cell Line	embryonic stem cell
12	chr20:15869200-15871400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr20:15869200-15872000	Enhancers	HUES48 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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