RetrogeneDB ID: | retro_sscr_392 | ||
Retrocopylocation | Organism: | Pig (Sus scrofa) | |
Coordinates: | 13:158257962..158258532(-) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | RPL13A | ||
Ensembl ID: | ENSSSCG00000003166 | ||
Aliases: | None | ||
Description: | Sus scrofa ribosomal protein L13a (RPL13A), transcript variant 1, mRNA. [Source:RefSeq mRNA;Acc:NM_001244068] |
Percent Identity: | 73.82 % |
Parental protein coverage: | 93.63 % |
Number of stop codons detected: | 2 |
Number of frameshifts detected | 0 |
Parental | GHLLGRLAAIVAKQVLLGRKVVVVRCEGINISGNFYRNKLKYLAFLRKRMNTNPSRGPYHFRAPSRIFWR |
G.LLG.LAAI.AKQVLLG.KVVVV.CEGI.ISGNF..NKLKYLAFL.KR..TN.S.GPY.F..PS.IFW. | |
Retrocopy | GYLLGCLAAIIAKQVLLGWKVVVVPCEGISISGNFCKNKLKYLAFLHKRVDTNLSGGPYCFPDPSHIFWW |
Parental | TVRGMLPHKTKRGQAALDRLKVFDGIPPPYDKKKRMVVPAALKVVRLKPTRKFAYLGRLAHEVGWKYQAV |
.V.GML.HKTK.GQAALD..KVFDG.PP.YDKK..MV.P.ALKVV.LKP..KFAYLG.LAHEVG..YQAV | |
Retrocopy | MV*GMLLHKTKLGQAALDHFKVFDGMPPCYDKKRQMVFPLALKVVCLKPMQKFAYLGCLAHEVG*EYQAV |
Parental | TATLEEKRKEKAKIHYRKKKQLMRLRKQAEKNVEKKIDRFTEVLKTHGFLV |
TATLE.KRKEKAK.HY.KKKQL.RL..Q..KN...KIDRF.E..KTHGFLV | |
Retrocopy | TATLEVKRKEKAKTHYQKKKQLVRLQTQTGKNI-GKIDRFIEDRKTHGFLV |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP014902_placenta | 0 .27 RPM | 596 .49 RPM |
SRP014902_testis | 0 .14 RPM | 1096 .35 RPM |
SRP018288_heart | 0 .00 RPM | 331 .72 RPM |
SRP018288_kidney | 0 .00 RPM | 375 .31 RPM |
SRP018288_liver | 0 .00 RPM | 253 .62 RPM |
SRP018288_lung | 0 .00 RPM | 443 .45 RPM |
SRP018856_adipose | 0 .00 RPM | 599 .82 RPM |
SRP035408_brain | 0 .95 RPM | 1828 .74 RPM |
SRP035408_liver | 0 .56 RPM | 1076 .01 RPM |