Variant report

Variant	rs10411877
Chromosome Location	chr19:41410115-41410116
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:41283761..41286182-chr19:41409909..41411443,2	K562	blood:

Variant related genes	Relation type
ENSG00000171570	Chromatin interaction
ENSG00000167578	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10406188	0.83[ASN][1000 genomes]
rs10410750	0.84[ASN][1000 genomes]
rs10411264	0.83[ASN][1000 genomes]
rs10414481	0.83[ASN][1000 genomes]
rs10416968	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10418318	0.85[ASN][1000 genomes]
rs10419393	0.89[ASN][1000 genomes]
rs10421888	0.84[ASN][1000 genomes]
rs11083582	0.85[ASN][1000 genomes]
rs11665969	0.84[ASN][1000 genomes]
rs12982395	0.80[ASN][1000 genomes]
rs28472879	0.83[ASN][1000 genomes]
rs28503746	0.83[ASN][1000 genomes]
rs28619553	0.80[ASN][1000 genomes]
rs3797218	0.80[ASN][1000 genomes]
rs3852870	0.85[ASN][1000 genomes]
rs3865457	0.84[ASN][1000 genomes]
rs3909341	0.84[ASN][1000 genomes]
rs3909342	0.85[ASN][1000 genomes]
rs4105141	0.81[ASN][1000 genomes]
rs4105142	0.84[ASN][1000 genomes]
rs4105143	0.82[ASN][1000 genomes]
rs4142867	0.80[ASN][1000 genomes]
rs4803389	0.80[ASN][1000 genomes]
rs4803400	0.89[ASN][1000 genomes]
rs5007415	0.83[ASN][1000 genomes]
rs56081734	0.80[ASN][1000 genomes]
rs6508953	0.84[ASN][1000 genomes]
rs67421541	0.85[ASN][1000 genomes]
rs7252852	0.89[ASN][1000 genomes]
rs7254188	0.86[ASN][1000 genomes]
rs7258590	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7258728	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7343061	0.87[ASN][1000 genomes]
rs8103288	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758500	chr19:41291627-41546068	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	esv2758762	chr19:41291627-41546068	Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv1066637	chr19:41309211-41597896	Weak transcription Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	esv3337314	chr19:41388910-41534583	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	nsv960838	chr19:41401531-41413740	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv437830	chr19:41408746-41515702	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:41403000-41414200	Weak transcription	Lung	lung
2	chr19:41406800-41410400	Weak transcription	K562	blood
3	chr19:41408200-41410600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr19:41410000-41410600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links