RetrogeneDB ID: | retro_lcha_79 | ||
Retrocopylocation | Organism: | Coelacanth (Latimeria chalumnae) | |
Coordinates: | JH127273.1:240171..240724(-) | ||
Located in intron of: | ENSLACG00000006680 | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | MAD1L1 | ||
Ensembl ID: | ENSLACG00000017346 | ||
Aliases: | None | ||
Description: | None |
Percent Identity: | 69.19 % |
Parental protein coverage: | 82.88 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 1 |
Parental | WCAESLSLLSVKYNCTTLKPFSDLHRQFCLDSKDIWRFFQLRHCIVQLYRDQGKVPLLGELLPFYELTRC |
W....L.........TTLK.F.DL.R.F.LDSKDIWRFFQLRHCIVQLYRD.GK.PL.GE.LPFYE..RC | |
Retrocopy | WFNKGLHRIGDLFQGTTLKSFNDLQREFSLDSKDIWRFFQLRHCIVQLYRDRGKAPLPGEFLPFYESARC |
Parental | LPHTAALIYSHLISIPPASMIGPLEYWVRELELELEEGERESLMRNMYLPLREARLK-LQHFKIVNRLYW |
LPHTAALI.SHLISIPPA.MIGPLEYWVRELE.................P......K.LQ.FKIVNRLYW | |
Retrocopy | LPHTAALIHSHLISIPPATMIGPLEYWVRELEXXXXXXXXREPHEKHVSPFERSQAK>LQQFKIVNRLYW |
Parental | TPSHLGVAGLQEGRGCWFCSAQVGDLQHMLWECENLTRFWDEVLQ |
TPS.LG.AGL.EGRGCWFC.AQVGDL.HMLWEC.NLTRFWDEVLQ | |
Retrocopy | TPSRLGAAGLREGRGCWFCLAQVGDLHHMLWECGNLTRFWDEVLQ |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
DRP000627_gill | 0 .00 RPM | 1 .12 RPM |
DRP000627_kidney | 0 .00 RPM | 0 .58 RPM |
DRP000627_pectoral_fin | 0 .00 RPM | 3 .42 RPM |
DRP000627_pelvic_fin | 0 .00 RPM | 3 .94 RPM |
DRP000627_pharynx | 0 .02 RPM | 0 .51 RPM |
DRP000627_tail_muscle | 0 .00 RPM | 0 .43 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Equus caballus | ENSECAG00000014242 | 1 retrocopy | |
Latimeria chalumnae | ENSLACG00000017346 | 17 retrocopies |