RetrogeneDB ID: | retro_ogla_61 | ||
Retrocopy location | Organism: | African rice (Oryza glaberrima) | |
| Coordinates: | 3:16459516..16459777(-) | ||
| 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: | ORGLA04G0001200 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ogla_61
ACATGTTACCCTTTGAGCATTCGCTCGGGGGCTATTTCTATCTAAAAATTCTTTTCTGAGTATTGATTTCAGGAAAATTC
TATTCGACATTATCGAAGGCTCCATGTCTCTATGGTTCTACACCAAGATCGACTAAGGCGAATACGACAAATATCTACAA
GGCTTCGTCGCAGATTCTATGCCTTCTCGATCACGCAAGAACGGTTGGTGGATCTCGACAAGGAATACGGAATGAAGAGA
CGGTGTACCTGCCGAGATAAA
ORF - retro_ogla_61 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 67.82 % |
| Parental protein coverage: | 92.55 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | TSYSTTSAVGRSNMSKYIRHVSTKENSIRHYRTLHVSMVLHQDRLRRVRQILTRLLRRLYAYSITRERLV |
| T.Y......G.....K........ENSIRHYR.LHVSMVLHQDRLRR.RQI.TRL.RR.YA.SIT.ERLV | |
| Retrocopy | TCYPLSIRSGAISI*KFFSEY*FQENSIRHYRRLHVSMVLHQDRLRRIRQISTRLRRRFYAFSITQERLV |
| Parental | DLDKEYGMKRWCTCRDK |
| DLDKEYGMKR.CTCRDK | |
| Retrocopy | DLDKEYGMKRRCTCRDK |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Oryza glaberrima was not studied using RNA-Seq expression data.
Oryza glaberrima was not studied using ChIP-Seq data.
Oryza glaberrima was not studied using EST data.
Oryza glaberrima was not studied using FANTOM5 data.
retro_ogla_61 was not experimentally validated.
Retrocopy orthology:
Oryza glaberrima 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 glaberrima | ORGLA04G0001200 | 1 retrocopy |
retro_ogla_61 ,
|