RetrogeneDB ID: | retro_sscr_678 | ||
Retrocopylocation | Organism: | Pig (Sus scrofa) | |
Coordinates: | 2:104252238..104252922(-) | ||
Located in intron of: | ENSSSCG00000027608 | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | POU5F1 | ||
Ensembl ID: | ENSSSCG00000001393 | ||
Aliases: | POU5F1, OCT3, OCT4, Oct-4 | ||
Description: | Sus scrofa POU class 5 homeobox 1 (POU5F1), mRNA. [Source:RefSeq mRNA;Acc:NM_001113060] |
Percent Identity: | 56.33 % |
Parental protein coverage: | 62.78 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | PNPEESQDIKALQKDLEQFAKLLKQKRITLGYTQADVGLTLGVLFGKVFSQTTICRFEALQLSFKNMCKL |
P.P....DI.A..K..EQ.AK.L...R.TLGY.QADVG...G.LFGK..SQTTICRFEA.QLS..NM.KL | |
Retrocopy | PRPALPEDISAVEKEMEQLAKELRERRMTLGYSQADVGFAVGALFGKMLSQTTICRFEAQQLSLANMWKL |
Parental | RPLLQKWVEEADNNENLQEICKAETLV-QARKRKRTSIENRVRGNLESMFLQCPKPTLQQISHIAQQLGL |
RPLL..W.E..D...NL..ICK.E....QARKR.R.S.E.R...NLE..FLQCPKPT.QQIS.IA.QL.L | |
Retrocopy | RPLLKMWLEQVD-TKNLLGICKMEMILQQARKRRRASRERRIGNNLEKLFLQCPKPTPQQISCIAGQLRL |
Parental | EKDVVRVWFCNRRQKGKRSSSDYSQREDFEAAGSPFPGGPVSFPLAPGPHFGTPGYGGPHFTTLYSSVP- |
.KD.V.VWF.NR...G.R.SSD........AAG.PF.GGPV.FPL..G.HFG.P..GGP.F..L.S..P. | |
Retrocopy | QKDLVQVWFYNRSRQGGRPSSDFYPLAEVGAAGPPFSGGPVCFPLTSGFHFGPPHCGGPYFPPLCSYAPA |
Parental | -FPEGEAFPSVSVTPLGSP |
.FP.G....S...T.L..P | |
Retrocopy | AFPAGGTLLSAPATTLSFP |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP014902_placenta | 0 .13 RPM | 0 .27 RPM |
SRP014902_testis | 0 .28 RPM | 0 .85 RPM |
SRP018288_heart | 0 .00 RPM | 0 .03 RPM |
SRP018288_kidney | 0 .00 RPM | 0 .00 RPM |
SRP018288_liver | 0 .00 RPM | 0 .00 RPM |
SRP018288_lung | 0 .20 RPM | 0 .00 RPM |
SRP018856_adipose | 0 .35 RPM | 0 .02 RPM |
SRP035408_brain | 0 .00 RPM | 0 .00 RPM |
SRP035408_liver | 0 .06 RPM | 0 .00 RPM |
Species | RetrogeneDB ID |
---|---|
Pan troglodytes | retro_ptro_2132 |
Gorilla gorilla | retro_ggor_2275 |
Equus caballus | retro_ecab_301 |