RetrogeneDB ID: | retro_mmus_1411 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | 15:78554407..78554848(-) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSMUSG00000068226 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | Lage3 | ||
Ensembl ID: | ENSMUSG00000015289 | ||
Aliases: | Lage3, 1110049G11Rik, Eso3, Itba2 | ||
Description: | L antigen family, member 3 [Source:MGI Symbol;Acc:MGI:1913442] |
Percent Identity: | 92.52 % |
Parental protein coverage: | 99.32 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | MQTAHTGLSHTADGADGQTSRCCPGNAGTKAVIPSGAHPVARALEASRNSSKSMVPLTQRPGTRHHRFSL |
MQTAHTGLSHTADGA.G.TSRCCPGNAGTKAVIPSGAHPV.RALEASRN.SKS.VPLTQRPG.R..RF.L | |
Retrocopy | MQTAHTGLSHTADGAYGPTSRCCPGNAGTKAVIPSGAHPVGRALEASRNPSKSIVPLTQRPGSRYRRFAL |
Parental | FVPFPTSLEAEIACGSLVPDVEPHRGLVGKELKVSGCMLEVRWIAEDSRLLRLSIINFLDQLSLVVNTIQ |
FVPFPTSLEAEIACGSLVPDVEPHRGLVGKELKVSGC.LEVRWIAEDSRLLR.SIINFLDQLSLVVNTIQ | |
Retrocopy | FVPFPTSLEAEIACGSLVPDVEPHRGLVGKELKVSGCLLEVRWIAEDSRLLRISIINFLDQLSLVVNTIQ |
Parental | LFGPPVS |
LFGPPVS | |
Retrocopy | LFGPPVS |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 0 .19 RPM | 6 .71 RPM |
SRP007412_cerebellum | 0 .13 RPM | 7 .38 RPM |
SRP007412_heart | 0 .12 RPM | 9 .81 RPM |
SRP007412_kidney | 0 .19 RPM | 14 .75 RPM |
SRP007412_liver | 0 .03 RPM | 10 .54 RPM |
SRP007412_testis | 0 .59 RPM | 1 .23 RPM |
ENCODE library ID | Target | ChIP-Seq Peak coordinates |
---|---|---|
ENCFF001YIJ | POLR2A | 15:78554947..78555246 |
ENCFF001YKA | POLR2A | 15:78554704..78555466 |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Dasypus novemcinctus | ENSDNOG00000024143 | 1 retrocopy | |
Dipodomys ordii | ENSDORG00000009093 | 1 retrocopy | |
Homo sapiens | ENSG00000196976 | 1 retrocopy | |
Gorilla gorilla | ENSGGOG00000013507 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000007739 | 1 retrocopy | |
Mus musculus | ENSMUSG00000015289 | 2 retrocopies |
retro_mmus_1411 , retro_mmus_1665,
|
Nomascus leucogenys | ENSNLEG00000014285 | 1 retrocopy | |
Ochotona princeps | ENSOPRG00000003778 | 2 retrocopies | |
Pongo abelii | ENSPPYG00000020881 | 1 retrocopy | |
Rattus norvegicus | ENSRNOG00000037249 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000025528 | 1 retrocopy |