Variant report

Variant	rs28578474
Chromosome Location	chr4:69862670-69862671
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-UGT2A3-7	chr4:69862653-69863427	NONHSAT096749

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10008743	0.85[EUR][1000 genomes]
rs10009634	0.96[EUR][1000 genomes]
rs10014355	0.96[EUR][1000 genomes]
rs10030409	0.85[EUR][1000 genomes]
rs10050146	0.85[EUR][1000 genomes]
rs10213292	0.96[EUR][1000 genomes]
rs28375844	0.85[EUR][1000 genomes]
rs28410179	0.96[EUR][1000 genomes]
rs28454605	0.92[EUR][1000 genomes]
rs28458345	0.85[EUR][1000 genomes]
rs28462361	0.96[EUR][1000 genomes]
rs28472596	0.96[EUR][1000 genomes]
rs28535667	0.96[EUR][1000 genomes]
rs28539948	0.85[EUR][1000 genomes]
rs28637446	0.96[EUR][1000 genomes]
rs28675300	0.85[EUR][1000 genomes]
rs28678018	0.92[EUR][1000 genomes]
rs28678791	0.96[EUR][1000 genomes]
rs28684869	0.92[EUR][1000 genomes]
rs28685210	0.96[EUR][1000 genomes]
rs28726088	0.81[EUR][1000 genomes]
rs28754965	0.92[EUR][1000 genomes]
rs28821804	0.96[EUR][1000 genomes]
rs28890225	0.96[EUR][1000 genomes]
rs34661811	0.85[EUR][1000 genomes]
rs4299663	0.96[EUR][1000 genomes]
rs4412057	0.96[EUR][1000 genomes]
rs56028004	0.92[EUR][1000 genomes]
rs57913007	0.85[EUR][1000 genomes]
rs59592861	0.92[EUR][1000 genomes]
rs60930838	0.96[EUR][1000 genomes]
rs72855405	0.85[EUR][1000 genomes]
rs73823805	0.96[EUR][1000 genomes]
rs73823851	0.92[EUR][1000 genomes]
rs73823857	0.85[EUR][1000 genomes]
rs73823859	0.85[EUR][1000 genomes]
rs73823860	0.85[EUR][1000 genomes]
rs73826062	0.96[EUR][1000 genomes]
rs9985807	0.96[EUR][1000 genomes]
rs9993579	0.96[EUR][1000 genomes]
rs9995928	0.85[EUR][1000 genomes]
rs9999964	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005513	chr4:69446718-69890307	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv999654	chr4:69661415-70132110	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
3	esv3420586	chr4:69680878-70322918	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
4	nsv1067773	chr4:69718248-70715727	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	esv3468151	chr4:69718675-70322776	Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
6	esv3468153	chr4:69718675-70322776	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
7	nsv967758	chr4:69780530-69870183	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv829962	chr4:69786869-69910283	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	nsv594582	chr4:69827340-69988378	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:69862600-69863600	Weak transcription	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links