Variant report

Variant	rs6074905
Chromosome Location	chr20:15476726-15476727
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs2145010	0.91[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs2145014	0.83[EUR][1000 genomes]
rs2145016	0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs2180526	0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs2208135	0.96[CEU][hapmap];0.89[CHD][hapmap];0.98[GIH][hapmap];0.91[JPT][hapmap];0.88[MEX][hapmap];0.98[TSI][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2327955	0.95[GIH][hapmap];0.87[ASN][1000 genomes]
rs2876409	0.82[CHB][hapmap];0.86[CHD][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs6079849	0.93[GIH][hapmap]
rs6105419	0.83[ASN][1000 genomes]
rs6110634	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs6110637	0.84[CHD][hapmap];0.95[GIH][hapmap];0.82[JPT][hapmap]
rs6131675	0.87[ASN][1000 genomes]
rs755792	0.82[CHB][hapmap];0.82[JPT][hapmap];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062252	chr20:14964258-15547739	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv544206	chr20:14964258-15547739	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	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
4	nsv833927	chr20:15362602-15520185	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6074905	LOC100130264	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:15473800-15476800	Weak transcription	Colon Smooth Muscle	Colon
2	chr20:15474600-15477600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr20:15474800-15476800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr20:15475200-15477000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr20:15475600-15477400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr20:15476400-15477000	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr20:15476400-15477400	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr20:15476400-15477800	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr20:15476400-15477800	Enhancers	HUES64 Cell Line	embryonic stem cell
10	chr20:15476600-15476800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr20:15476600-15477600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr20:15476600-15477800	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr20:15476600-15477800	Enhancers	iPS-15b Cell Line	embryonic stem cell

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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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