RetrogeneDB ID: | retro_ptri_29 | ||
Retrocopy location | Organism: | Western balsam poplar (Populus trichocarpa) | |
| Coordinates: | 15:5984775..5984997(-) | ||
| 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: | POPTR_0002s01410 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ptri_29
GATTGATCATTCCAGAGGAAGGGGAGACTGAAAGAGATGGCAGGAGGACATGGAGAGGGCGTCAGTTACAAAGGCTTGAC
TATGCATAAGCCAAAGCGATGGGATGTAGTCACTGGAAAGGGCCCGTGTGCTGTCATGTGGTTTTGGGTACTTTACAGGG
AGAAGCAAGATAGCCCTGTAGTATTGGGGTGGAGACATCCTTGGGAGGGACATAGTGACCAT
ORF - retro_ptri_29 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.08 % |
| Parental protein coverage: | 74.75 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | DRSIERQRRVKEMAGGHGEGFAYKGLTMHKPKRWHTVTGKGLCAVMWFWVLYRAKQDGPVVLGWRHPWEG |
| D.S..R..R.KEMAGGHGEG..YKGLTMHKPKRW..VTGKG.CAVMWFWVLYR.KQD.PVVLGWRHPWEG | |
| Retrocopy | D*SFQRKGRLKEMAGGHGEGVSYKGLTMHKPKRWDVVTGKGPCAVMWFWVLYREKQDSPVVLGWRHPWEG |
| Parental | HDDH |
| H.DH | |
| Retrocopy | HSDH |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Populus trichocarpa was not studied using RNA-Seq expression data.
Populus trichocarpa was not studied using ChIP-Seq data.
Populus trichocarpa was not studied using EST data.
Populus trichocarpa was not studied using FANTOM5 data.
retro_ptri_29 was not experimentally validated.
Retrocopy orthology:
Populus trichocarpa 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 | |
|---|---|---|---|
| Populus trichocarpa | POPTR_0002s01410 | 1 retrocopy |
retro_ptri_29 ,
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