RetrogeneDB ID: | retro_ptri_18 | ||
Retrocopy location | Organism: | Western balsam poplar (Populus trichocarpa) | |
| Coordinates: | 4:1946519..1946882(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | POPTR_0004s02890 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | POPTR_0017s11850 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ptri_18
AGAGGATCCCAACTTTTGGTCCACCCCAAACGTCACAGCTACGCCACAAAATCTAACCAACACCGTGTGGTCATAAGCCC
TTGTGGGAAATTGGTTTACCAAACCACCAAGAAGAGGGCTAGTGGACCCAAGTGCCCAGTTACTGGCAAGAGGATTCAAG
GGATCCCTCACTTGAGACCTGCTAAATACAAGAGGTCTAGACTGTCAAGGAATCGCAGGACTGTGAACCGTGCCTATGGT
GGAGTCTTGTCTGGAAGTGCTGTTAGGGAGAGAATTATCCGGGCTTTCTTGGTGGAGGAGCAAAAGATTGTGAAGAAGGT
TTTGAAGATTCAGAAGGCAAAGGAAAAACAGGCCTCAAAATGA
ORF - retro_ptri_18 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 93.16 % |
| Parental protein coverage: | 97.5 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | QRLTYRKRHSYATKSNQHRVVKTPGGKLVYQTTKKRASGPKCPVTGKRIQGIPHLRPAEYKRSRLSRNRR |
| Q.L...KRHSYATKSNQHRVV..P.GKLVYQTTKKRASGPKCPVTGKRIQGIPHLRPA.YKRSRLSRNRR | |
| Retrocopy | QLLVHPKRHSYATKSNQHRVVISPCGKLVYQTTKKRASGPKCPVTGKRIQGIPHLRPAKYKRSRLSRNRR |
| Parental | TVNRAYGGVLSGSAVRERIIRAFLVEEQKIVKKVLKIQKAKEKQASK |
| TVNRAYGGVLSGSAVRERIIRAFLVEEQKIVKKVLKIQKAKEKQASK | |
| Retrocopy | TVNRAYGGVLSGSAVRERIIRAFLVEEQKIVKKVLKIQKAKEKQASK |
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_18 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_0017s11850 | 1 retrocopy |
retro_ptri_18 ,
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