Variant report

Variant	rs6135475
Chromosome Location	chr20:15621362-15621363
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12480166	0.84[JPT][hapmap]
rs13037372	0.82[ASN][1000 genomes]
rs1345367	0.88[CEU][hapmap]
rs455509	1.00[JPT][hapmap]
rs6110710	0.84[JPT][hapmap]
rs6110712	0.86[CHD][hapmap];0.95[JPT][hapmap]
rs6110714	0.84[JPT][hapmap]
rs6110715	0.84[JPT][hapmap]
rs6110716	0.84[JPT][hapmap]
rs6110718	0.84[JPT][hapmap]
rs6131683	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];0.98[GIH][hapmap];0.90[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6131684	0.91[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.80[MEX][hapmap];0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6131685	0.84[AMR][1000 genomes];0.86[ASN][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	esv2751909	chr20:15489871-15656007	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv833928	chr20:15619962-15780758	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:15617600-15629000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr20:15618800-15622600	Weak transcription	Aorta	Aorta
3	chr20:15619000-15622000	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr20:15619000-15622400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr20:15619000-15622600	Weak transcription	Brain Substantia Nigra	brain
6	chr20:15619400-15622800	Weak transcription	Fetal Kidney	kidney
7	chr20:15619400-15629200	Weak transcription	Colon Smooth Muscle	Colon
8	chr20:15619400-15634600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr20:15620000-15621400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr20:15620400-15621400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr20:15621000-15623600	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr20:15621200-15622000	Weak transcription	Brain Hippocampus Middle	brain

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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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