RetrogeneDB ID: | retro_atri_37 | ||
Retrocopy location | Organism: | Amborella (Amborella trichopoda) | |
| Coordinates: | AmTr_v1.0_scaffold00055:2185499..2185817(+) | ||
| Located in intron of: | AMTR_s00055p00148110 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | AMTR_s00045p00184740 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_atri_37
GCTTACTGGAAATTGGCAATGACGTGGCATCCGGATAATTGGGCAAAGAGTCCTCATGTTGGAGAAGCTAATAGGAGGTT
CTGAGAAATCCAAGAGGCCTATACAGTTTTATTTGATGAAGTCAAGAGGGCAATGTATGATGCAGGGGTAAATGATCCAT
TAGAAGAAAAAGATCAGAGATTTTCGGATGTTATGTGAGAATTGATGTCCATGATGGACAGTGTGAGCTTTCGGAAGAAT
GAGAGCTTTGAGGAGTTGCAGAGAATGTTCATGGACATTGTGGGTAGCGAAGGCGAGGTTACGCTCTGTTCTTCAAGC
ORF - retro_atri_37 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.37 % |
| Parental protein coverage: | 50.23 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | AYRKLAMKWHPDKWAKSPSHAGEANRRFQEIQEAYTVLSDEVKRAMYDVGVYDPLEEEDEGFSDFMQELM |
| AY.KLAM.WHPD.WAKSP.H.GEANRRF.EIQEAYTVL.DEVKRAMYD.GV.DPLEE.D..FSD.M.ELM | |
| Retrocopy | AYWKLAMTWHPDNWAKSP-HVGEANRRF*EIQEAYTVLFDEVKRAMYDAGVNDPLEEKDQRFSDVM*ELM |
| Parental | SMMDGVTSQKNESFEELQRMFMDMVGSEGEVTKCSSA |
| SMMD.V...KNESFEELQRMFMD.VGSEGEVT.CSS. | |
| Retrocopy | SMMDSVSFRKNESFEELQRMFMDIVGSEGEVTLCSSS |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Amborella trichopoda was not studied using RNA-Seq expression data.
Amborella trichopoda was not studied using ChIP-Seq data.
Amborella trichopoda was not studied using EST data.
Amborella trichopoda was not studied using FANTOM5 data.
retro_atri_37 was not experimentally validated.
Retrocopy orthology:
Amborella trichopoda 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 | |
|---|---|---|---|
| Amborella trichopoda | AMTR_s00045p00184740 | 1 retrocopy |
retro_atri_37 ,
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