RetrogeneDB ID: | retro_sscr_252 | ||
Retrocopylocation | Organism: | Pig (Sus scrofa) | |
Coordinates: | 10:77826850..77827930(-) | ||
Located in intron of: | None | ||
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: | 66.39 % |
Parental protein coverage: | 99.72 % |
Number of stop codons detected: | 6 |
Number of frameshifts detected | 2 |
Parental | AGHLASDFAFSPPPGGGGDGPGGPEPGWVDPRTWLSFQGPPGGSGIGPGV-GPGAEVWGLPACPPP-YDF |
A.HLAS..AF...P....DG.GGPEPGW.DP.TW.SFQG.P..SGI.PG..G.G..V.GL...PPP.Y.F | |
Retrocopy | AEHLASNPAFFSLPCSADDGLGGPEPGWDDPQTWVSFQGTPKQSGIRPGG>GLGTKV*GLHNPPPPSYGF |
Parental | CGGMAYCAPQVGVGLVPQGGLETPQPE-GEAGAGVESNSEGASPEPCAAPAGAAKLDKEKLEPN-PEESQ |
..GMA.C.PQV.VGLVPQ..LETPQ...G..GA.V.SNS....P.P...PAGAAKLDKEKLEPN.P.ESQ | |
Retrocopy | *RGMASCTPQVRVGLVPQHSLETPQHK<GKIGAWVGSNSKRPTPIP-VPPAGAAKLDKEKLEPNLPKESQ |
Parental | DIKALQKDLEQFAKLLKQKRITLGYTQADVGLTLGVLFGKVFSQTTICRFEALQLSFKNMCKLRPLLQKW |
DIK.L..D..Q.AKLLKQKRITL.YTQADVGL.L.VLFG..FSQ.TI..FEALQLSF.N..KLR..LQKW | |
Retrocopy | DIKSL*NDIKQSAKLLKQKRITLIYTQADVGLNLWVLFGNTFSQITIHHFEALQLSFTNISKLRTSLQKW |
Parental | VEEADNNENLQEICKAETLVQARKRKRTSIENRVRGNLESMFLQCPKPTLQQISHIAQQLGLEKDVVRVW |
VEE..N.ENLQEI.KA.TL..A.K.K.TS.EN.VRGNLESMFL...KPTLQ.ISHI.Q.LGLEK.VV.VW | |
Retrocopy | VEESYNKENLQEIYKAKTLLHAWKGKKTSMENPVRGNLESMFL*GLKPTLQHISHIVQLLGLEKNVV*VW |
Parental | FCNRRQKGKRSSSDYSQREDFEAAGSPFPGGPVSFPLAPGPHFGTPGYGGPHFTTLYSSVPFPEGEAFPS |
F....QKGK.SS...SQ.E..EAAGSPFP.GPVSFPL...PH.GTPG..GPHFT.L.S..PFP.G..F.S | |
Retrocopy | FSKLCQKGKGSSCGSSQGECVEAAGSPFPEGPVSFPLVTEPHLGTPGSRGPHFTMLSS*IPFPKGQSFSS |
Parental | VSVTPLGSPMHSN |
.SV..LGSP.HSN | |
Retrocopy | MSVITLGSPIHSN |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP014902_placenta | 0 .00 RPM | 0 .27 RPM |
SRP014902_testis | 0 .00 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 .00 RPM | 0 .00 RPM |
SRP018856_adipose | 0 .00 RPM | 0 .02 RPM |
SRP035408_brain | 0 .00 RPM | 0 .00 RPM |
SRP035408_liver | 0 .00 RPM | 0 .00 RPM |