RetrogeneDB ID: | retro_atri_22 | ||
Retrocopy location | Organism: | Amborella (Amborella trichopoda) | |
| Coordinates: | AmTr_v1.0_scaffold00015:2962626..2963006(-) | ||
| 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: | AMTR_s00025p00199310 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_atri_22
TTACCCAGCTATTCACCTTCTGCCCTTCTCAATGACTTCCAACGGTCTAGCATAAAGGACGTGTTGACCCAACTTTCTTC
TTCTATTGACAAGAAGCAAATCACTGGAAAGGTTCTTTTGGGTATCTCAAATTATGAATTATACGTTCTAGATACATTTG
AGAATGTCGAGTATGAAAGGAAGCTAGTTGAGATCTCAGGAATGGGCACTTCGGAGAAGCTGCAAGCCCATACTTACGTT
TGGGGCAAGAAAGATGATCCAAATTTATGTGGAAACCGGGATTTCATTGATTGGAACAATAAATATTTGAACGATTTAGT
TGAGATGCAAAAGGTCTCATAGATGAATTGGATTCATTGCCCAAGATGGCCACTAATGAA
ORF - retro_atri_22 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.52 % |
| Parental protein coverage: | 79.14 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | VPPSSP-ALLNDFQRFSIKGRVYPAILPVDKKQVTGKVLLGISDYELYVLDTFEDVEYERKLVEISRMDT |
| .P..SP.ALLNDFQR.SIK..........DKKQ.TGKVLLGIS.YELYVLDTFE.VEYERKLVEIS.M.T | |
| Retrocopy | LPSYSPSALLNDFQRSSIKDVLTQLSSSIDKKQITGKVLLGISNYELYVLDTFENVEYERKLVEISGMGT |
| Parental | SEKLPAHTYVWGKKDDLNLCGDWDFVDWKEKYLNDFVEM-AKGFIDELDQPESLPRVATYE |
| SEKL.AHTYVWGKKDD.NLCG..DF.DW..KYLND.VEM.AKG.IDELD...SLP..AT.E | |
| Retrocopy | SEKLQAHTYVWGKKDDPNLCGNRDFIDWNNKYLNDLVEM<AKGLIDELD---SLPKMATNE |
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_22 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_s00025p00199310 | 1 retrocopy |
retro_atri_22 ,
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