Variant report

Variant	rs11880604
Chromosome Location	chr19:38113136-38113137
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10153500	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1038084	0.94[YRI][hapmap]
rs10407657	0.94[YRI][hapmap]
rs10424047	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10424612	0.94[YRI][hapmap]
rs11083424	0.87[YRI][hapmap];0.82[AMR][1000 genomes]
rs11879149	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11880056	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11883255	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2075282	1.00[JPT][hapmap]
rs2891683	0.82[AFR][1000 genomes]
rs2927743	0.83[YRI][hapmap]
rs2927744	1.00[YRI][hapmap]
rs34206817	0.91[EUR][1000 genomes]
rs34743484	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3810359	1.00[ASN][1000 genomes]
rs4802069	1.00[YRI][hapmap]
rs4803216	0.94[YRI][hapmap]
rs56075341	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56264690	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56281742	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57504517	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57725815	0.85[EUR][1000 genomes]
rs57867853	0.91[EUR][1000 genomes]
rs59966837	0.91[EUR][1000 genomes]
rs60686304	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62108260	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62108262	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62108264	1.00[ASN][1000 genomes]
rs62108289	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62108290	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62108292	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62108293	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62108297	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62108302	0.90[ASN][1000 genomes]
rs62108344	0.87[AFR][1000 genomes]
rs62108348	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62108354	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62110178	0.91[EUR][1000 genomes]
rs62110183	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62110185	0.85[EUR][1000 genomes]
rs62110186	0.85[EUR][1000 genomes]
rs62110188	0.80[AFR][1000 genomes]
rs62111488	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs62111490	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7245981	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7247175	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7255283	0.94[YRI][hapmap]
rs7258992	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7259029	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7259321	0.82[AMR][1000 genomes]
rs7259717	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73932929	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73932955	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs8101991	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs8102189	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8104124	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs8104747	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8108261	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8113076	0.94[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv579468	chr19:37977609-38293487	ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38105000-38116000	Weak transcription	Right Ventricle	heart
2	chr19:38105200-38115000	Weak transcription	Stomach Smooth Muscle	stomach
3	chr19:38112200-38113600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
4	chr19:38112400-38113600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr19:38112400-38113600	ZNF genes & repeats	Liver	Liver
6	chr19:38112600-38113400	ZNF genes & repeats	Colonic Mucosa	Colon
7	chr19:38112600-38113600	ZNF genes & repeats	Duodenum Mucosa	Duodenum
8	chr19:38112600-38113600	ZNF genes & repeats	Skeletal Muscle Male	skeletal muscle
9	chr19:38112600-38115400	ZNF genes & repeats	Adipose Nuclei	Adipose
10	chr19:38112800-38113600	ZNF genes & repeats	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr19:38113000-38113600	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr19:38113000-38113600	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell

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