Variant report

Variant	rs55756093
Chromosome Location	chr13:87843000-87843001
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10444617	0.81[AFR][1000 genomes]
rs10444618	0.81[AFR][1000 genomes]
rs10444619	0.81[AFR][1000 genomes]
rs11618967	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16951130	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16951137	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4476033	0.85[AFR][1000 genomes]
rs56198489	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56204352	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56402506	1.00[ASN][1000 genomes]
rs56723125	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57386857	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58594104	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58658894	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58716013	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59760565	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59946799	0.81[AFR][1000 genomes]
rs60032361	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60048216	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60617913	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60680591	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60842880	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61192808	1.00[ASN][1000 genomes]
rs61579481	1.00[ASN][1000 genomes]
rs73560623	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73562438	1.00[ASN][1000 genomes]
rs73562440	1.00[ASN][1000 genomes]
rs73562442	1.00[ASN][1000 genomes]
rs73565478	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73566067	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73567603	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74103203	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74103206	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs74103209	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74103210	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74103211	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs74103212	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74103272	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74103275	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74103295	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74103296	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74103302	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74105610	1.00[ASN][1000 genomes]
rs74105916	0.85[AFR][1000 genomes]
rs74105922	0.82[AFR][1000 genomes]
rs74105943	0.81[AFR][1000 genomes]
rs74105957	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs74105959	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9302046	0.81[AFR][1000 genomes]
rs9516522	0.82[AFR][1000 genomes]
rs9516523	0.82[AFR][1000 genomes]
rs9516525	0.82[AFR][1000 genomes]
rs9524783	0.84[AFR][1000 genomes]
rs9524793	0.82[AFR][1000 genomes]
rs9524798	0.81[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv562621	chr13:87192747-87927450	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1045687	chr13:87822969-88114685	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv541860	chr13:87822969-88114685	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	esv3351770	chr13:87824000-87847009	Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases
5	nsv930999	chr13:87831662-88143592	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1047914	chr13:87835419-87909531	Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1043448	chr13:87835419-88140970	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv517795	chr13:87836852-87893390	Active TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:87840600-87845200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr13:87840800-87844200	Active TSS	HUES6 Cell Line	embryonic stem cell
3	chr13:87841200-87844800	Active TSS	ES-I3 Cell Line	embryonic stem cell
4	chr13:87842400-87843800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr13:87842400-87844200	Active TSS	iPS-18 Cell Line	embryonic stem cell
6	chr13:87842600-87843600	Active TSS	H9 Cell Line	embryonic stem cell
7	chr13:87842800-87843000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr13:87842800-87843200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr13:87843000-87843400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links