RetrogeneDB ID: | retro_opun_44 | ||
Retrocopy location | Organism: | Red rice (Oryza punctata) | |
| Coordinates: | 12:24244444..24244724(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | OPUNC01G29700 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_opun_44
GTAGCTCATTTGCCGCGTACTACGAAGAGATCGATCGATCTGCGCCATGTACAATGGGTGTTTCCGGAGAGTACTCCTAC
ACACGGTGTTAACTTTTTCAGCCGGAGCCATCTCCCAGCAGAAGATCATGATCTCTCTGTGAGGGACCGCCTCCCTACGC
TCCTCCATTCCTTTTCGTGGAGCCACGGAGCCGGGCTTCGTGTTGGACGCACCGTGGCTAGAGAAGTGGCTCGTGGACAC
CGTTCCAACCCCCCGGATTTTTCCCTTCCACCCCTCACCT
ORF - retro_opun_44 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 61.46 % |
| Parental protein coverage: | 92.08 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | LANTRTTTERE-SNHSMYNRCPWGVALLTVSPFSAGAVSQQRAVTPLRGTL-LPALLRSFSSSHGAGLRV |
| .A....TT.R..S...MYN.C...V.L.TV..FSAGA.SQQ.....L.GT..LP.LL.SFS.SHGAGLRV | |
| Retrocopy | VAHLPRTTKRS>SICAMYNGCFRRVLLHTVLTFSAGAISQQKIMISL*GTA<LPTLLHSFSWSHGAGLRV |
| Parental | GRTVARGVARGHHSH-RWIFPFHPSP |
| GRTVAR.VARGH.S....IFPFHPSP | |
| Retrocopy | GRTVAREVARGHRSN>PRIFPFHPSP |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Oryza punctata was not studied using RNA-Seq expression data.
Oryza punctata was not studied using ChIP-Seq data.
Oryza punctata was not studied using EST data.
Oryza punctata was not studied using FANTOM5 data.
retro_opun_44 was not experimentally validated.
Retrocopy orthology:
Oryza punctata does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryza punctata | OPUNC01G29700 | 1 retrocopy |
retro_opun_44 ,
|