RetrogeneDB ID: | retro_dnov_1868 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_34321:42201..42769(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDNOG00000009462 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSDNOG00000012571 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_dnov_1868
CGACCAGGAATGCTCGAAGTAGCTGAGAGCTCTGCCAGCATCCGTCTTCGGTGGACGCAAGTCAAAAGAGCCATTGCGGA
GCTAAACCGCATATTACTAAGCATTACAAGTCAGAGTTCTGAGACTTGCTCTGGAGTGGGCAGTATCAAACGGAGAAATG
CTCATAACCCAGAATAGCTCTTTGGAATTTAAGCTACACAGACTGTATCTCATTAGCCTGTTAATGGGTGGAACTACAAA
TCAGCGAGAAGCTTTACAATATGCTAAAAATTTTCAGCCATCCGCCCTAAATCTTCAAAAAGATATTCAGGTCTTGATGG
GAAGCCCTGTGTATCTGAGACAAGGGATTGAGAACTCACCTCATGTTCACCTGCGTGATGCAGACCAGTGGGCTGACATC
TGTGACATCACGCGGGACGCCTGCGCCCTCCTCGGGCCGTCTGTGGAGTCCCCTCTCAGTATCAGTTTCTCAGCAGATTG
TGTGGCGCTGCCAGCTTTAATTAACAGCAAAGCCGTGATTGAACAAAGGCAGTGCACTGGAGTTTGGAACCAGAAAGATG
AATTACCT
ORF - retro_dnov_1868 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 84.69 % |
| Parental protein coverage: | 59.63 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | RQGMLDVAE-ELCQESGLSVDPSQK-EPF-VELNRILE-ALKVRVLRPALEWAVSNREMLIAQNSSLEFK |
| R.GML.VAE.ELCQ....SVD.SQK.EP...ELNRIL..AL.VRVLR.ALEWAVSN.EMLI.QNSSLEFK | |
| Retrocopy | RPGMLEVAE<ELCQHPS-SVDASQK<EPL<AELNRILL>ALQVRVLRLALEWAVSNGEMLITQNSSLEFK |
| Parental | LHRLYFISLLMGGTTNQREALQYAKNFQPFALNHQKDIQVLMGSLVYLRQGIENSPYVHLLDANQWADIC |
| LHRLY.ISLLMGGTTNQREALQYAKNFQP.ALN.QKDIQVLMGS.VYLRQGIENSP.VHL.DA.QWADIC | |
| Retrocopy | LHRLYLISLLMGGTTNQREALQYAKNFQPSALNLQKDIQVLMGSPVYLRQGIENSPHVHLRDADQWADIC |
| Parental | DIFTRDACALLGLSVESPLSVSFSAGCVALPALINIKAVIEQRQCTGVWNQKDELP |
| DI.TRDACALLG.SVESPLS.SFSA.CVALPALIN.KAVIEQRQCTGVWNQKDELP | |
| Retrocopy | DI-TRDACALLGPSVESPLSISFSADCVALPALINSKAVIEQRQCTGVWNQKDELP |
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 | 26 .45 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 54 .99 RPM |
| SRP012922_heart | 0 .00 RPM | 26 .68 RPM |
| SRP012922_kidney | 0 .27 RPM | 32 .03 RPM |
| SRP012922_liver | 0 .00 RPM | 26 .01 RPM |
| SRP012922_lung | 0 .00 RPM | 29 .78 RPM |
| SRP012922_quadricep_muscle | 0 .35 RPM | 77 .02 RPM |
| SRP012922_spleen | 0 .00 RPM | 42 .24 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_1868 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 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000012571 | 2 retrocopies |
retro_dnov_1868 , retro_dnov_35,
|
| Tupaia belangeri | ENSTBEG00000016987 | 3 retrocopies |