RetrogeneDB ID: | retro_dnov_2680 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_97546:557..910(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | UBE2J1 | ||
| Ensembl ID: | ENSDNOG00000006232 | ||
| Aliases: | None | ||
| Description: | ubiquitin-conjugating enzyme E2, J1 [Source:HGNC Symbol;Acc:17598] |
Retrocopy-Parental alignment summary:
>retro_dnov_2680
TCAGCATTAATAGCCATTGTTGCATTTTTGCCAGCAAAAGGAGAAGGAGCCGGAGGGATTCTGGATTATATGCCTGAGGA
AAGAAGAGCGTTTGCCAAAAAAAAATCACAAGATTTCTGTTGAGAGGATGTGGCTCCACTATGAAAGGCATCCTGTTGCC
TTTAAAATCTGGAAGTGATTTGATCTAGGCTGACCAAGAGGCAAATAAACCTGCTAGACAAATCAGTTTTAAGGGAGAAG
TCACTTCATCTGGAAAGATGATTGCTGAGTCAGACTTAAACCACTCTTTTTCACTAAATGATTTACAAGATGATATTCCT
ACAGCATTGCAGTGCATGAAGTCCAGAACTCCT
ORF - retro_dnov_2680 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 69.75 % |
| Parental protein coverage: | 51.77 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | TALLAIIGFMPTKGEGAIGSLDYTPEERKALAKK-SQDFCCE-GCGSTMKDVLLPLKSGSDSSQADQEAK |
| .AL.AI..F.P.KGEGA.G.LDY.PEER.A.A...SQDFC.E.GCGSTMK..LLPLKSGSD...ADQEA. | |
| Retrocopy | SALIAIVAFLPAKGEGAGGILDYMPEERRAFAXXXSQDFC*E<GCGSTMKGILLPLKSGSDLI*ADQEAN |
| Parental | ELARQISFKAEVNSPGKTVAESDLNHSFSLNDLQDDIPTTFQGATASTP |
| ..ARQISFK.EV.S.GK..AESDLNHSFSLNDLQDDIPT..Q.....TP | |
| Retrocopy | KPARQISFKGEVTSSGKMIAESDLNHSFSLNDLQDDIPTALQCMKSRTP |
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 | 19 .25 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 13 .75 RPM |
| SRP012922_heart | 0 .00 RPM | 3 .94 RPM |
| SRP012922_kidney | 0 .00 RPM | 6 .02 RPM |
| SRP012922_liver | 0 .00 RPM | 6 .97 RPM |
| SRP012922_lung | 0 .00 RPM | 13 .75 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 8 .65 RPM |
| SRP012922_spleen | 0 .00 RPM | 30 .68 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_2680 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Cavia porcellus | ENSCPOG00000001432 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000006232 | 1 retrocopy |
retro_dnov_2680 ,
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