Variant report

Variant	rs6034191
Chromosome Location	chr20:15420403-15420404
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1326670	1.00[CHB][hapmap];0.94[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.99[ASN][1000 genomes]
rs1468888	1.00[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2104589	0.85[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap]
rs2208137	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs380512	0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs394042	0.85[CEU][hapmap];0.81[CHB][hapmap];0.90[JPT][hapmap]
rs426845	0.85[CEU][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs453612	0.86[CHB][hapmap];0.90[JPT][hapmap];0.94[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4814370	0.85[CEU][hapmap];0.86[CHB][hapmap];0.85[CHD][hapmap];0.89[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.83[TSI][hapmap]
rs4814371	0.81[CHB][hapmap];0.85[CHD][hapmap];0.90[JPT][hapmap]
rs4814376	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6034183	0.86[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs6034185	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs6034186	0.82[CHD][hapmap];0.90[JPT][hapmap]
rs6034188	1.00[CEU][hapmap];0.86[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.88[TSI][hapmap]
rs6034194	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6043268	0.85[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap]
rs6043269	0.85[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap]
rs6043282	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6043283	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6043287	0.95[CHB][hapmap];0.81[JPT][hapmap];0.93[ASN][1000 genomes]
rs6079821	1.00[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap]
rs6079828	0.95[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6079833	0.94[CHB][hapmap];0.93[ASN][1000 genomes]
rs6110606	0.86[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];0.97[TSI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs727245	0.85[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs727246	0.85[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs727247	0.86[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs927920	0.85[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs932822	0.86[CHB][hapmap];0.90[JPT][hapmap]

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
rs6034191	MGC44328	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:15419400-15421600	Enhancers	iPS-20b Cell Line	embryonic stem cell
2	chr20:15419800-15421600	Enhancers	Colon Smooth Muscle	Colon
3	chr20:15420000-15421800	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr20:15420200-15421000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
5	chr20:15420200-15421400	Enhancers	H9 Cell Line	embryonic stem cell
6	chr20:15420200-15421800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr20:15420200-15421800	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr20:15420200-15421800	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr20:15420200-15421800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr20:15420200-15422000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr20:15420200-15422000	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr20:15420200-15422200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr20:15420400-15421800	Enhancers	ES-I3 Cell Line	embryonic stem cell

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