RetrogeneDB ID: | retro_dnov_1805 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_31223:52164..52614(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ATG5 | ||
| Ensembl ID: | ENSDNOG00000013004 | ||
| Aliases: | None | ||
| Description: | autophagy related 5 [Source:HGNC Symbol;Acc:589] |
Retrocopy-Parental alignment summary:
>retro_dnov_1805
GCTCATTTTATGTATGTGTGAAAGAAGCTGATGCTTTAAAGCATAAGTCAAGTAATCAATGAAATGTGGAAAAAAGATCA
TAAGCAGCTCTGGATGGGATTATAAAATGACAGGTTTGACCAGTTTTGGGCTATCAATCAGAAATGCATGAAATATTCTG
CGGAGGAAAGTGGATTTTATTACATCCCTTTTAGAATATATAAAACAACAATTGAATGACCTTTCATTCAGAAGCTGTTT
CATCCTGTGGCTGCAGATGGACAGTTGCATACATCAGGAAATCTCCTCAGAGAAGCTTGTCCTTCAGCAATTGCTCCTGA
AGGTGGGGGAAAAAAGAATCAAGTAATGATTCATGGAATTGAGCCAATGATGGAGACACCTTTGCAGTGGCTGAGTGAAC
ACCTGAGCTACCCAGGTAGTTTTCTTCATTTTAGTATCATCCCACAACCA
ORF - retro_dnov_1805 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.47 % |
| Parental protein coverage: | 63.18 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | AHFMSCVKEADALKHKSQVINEMQKKDHKQLWMGLQNDRFDQFWAINRKLMEYPAEENGFRYIPFRIYQT |
| AHFM...K....L...SQVINEM.KKDHKQLWMGL.NDRFDQFWAIN.K.M.Y.AEE.GF.YIPFRIY.T | |
| Retrocopy | AHFMYV*KKL-ML*SISQVINEMWKKDHKQLWMGL*NDRFDQFWAINQKCMKYSAEESGFYYIPFRIYKT |
| Parental | TTERPFIQKLFRPVAADGQLHTLGDLLKEVCPSAIAPEDGEKKNQVMIHGIEPMMETPLQWLSEHLSYPD |
| T.E.PFIQKLF.PVAADGQLHT.G.LL.E.CPSAIAPE.G.KKNQVMIHGIEPMMETPLQWLSEHLSYP. | |
| Retrocopy | TIE*PFIQKLFHPVAADGQLHTSGNLLREACPSAIAPEGGGKKNQVMIHGIEPMMETPLQWLSEHLSYPG |
| Parental | NFLHVSIIPQP |
| .FLH.SIIPQP | |
| Retrocopy | SFLHFSIIPQP |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP012922_ascending_colon | 0 .00 RPM | 10 .11 RPM |
| SRP012922_cerebellum | 0 .14 RPM | 3 .30 RPM |
| SRP012922_heart | 0 .00 RPM | 2 .09 RPM |
| SRP012922_kidney | 0 .27 RPM | 6 .02 RPM |
| SRP012922_liver | 0 .00 RPM | 7 .74 RPM |
| SRP012922_lung | 0 .00 RPM | 8 .09 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 3 .63 RPM |
| SRP012922_spleen | 0 .00 RPM | 12 .48 RPM |
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_1805 was not experimentally validated.
Retrocopy orthology:
Dasypus novemcinctus 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 4 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000006399 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000013004 | 2 retrocopies |
retro_dnov_1805 , retro_dnov_950,
|
| Myotis lucifugus | ENSMLUG00000014090 | 1 retrocopy | |
| Ictidomys tridecemlineatus | ENSSTOG00000016507 | 1 retrocopy |