RetrogeneDB ID: | retro_dnov_1758 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_28975:8070..8490(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RAB3C | ||
| Ensembl ID: | ENSDNOG00000025047 | ||
| Aliases: | None | ||
| Description: | RAB3C, member RAS oncogene family [Source:HGNC Symbol;Acc:30269] |
Retrocopy-Parental alignment summary:
>retro_dnov_1758
GACACGGCCGGACAAAAGCGGTCCCGGGCCTTCGCCGCAGCCTCCTCCCGGGGTGCCGCGGGCTTCATCCTCGTGCGCGA
CATCTCCAACGAGGAGTCCTTCAACGCCGGGCGGGACTGGTCCACCCAACTCAAGACGCACCCCTGGGACGACGCGCAGG
TGCGGCAGGTGGGAACAAGGTGTCCCCGGGGACCAGCGGGCGGCGTCGCCTGAGCGCGGCGGCAGCTGGCGGGCCGCGCG
GGGTTCGAGTTCTTCCAGGCCAGCGCCAAGCACAGCATCAACGTCAAGCGGACCTTCCAGTGCCTGGTGAAGGTCATCTG
CGAGATGTCCGAGTCGCTGGACGCAGCGGACCCCGCGGTCACCGCGGCCGAGCAGGGGCCGCAGCTCACCCACCGGCAGG
CGCCCCCTCTCCAGGACTGC
ORF - retro_dnov_1758 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 53.52 % |
| Parental protein coverage: | 62.11 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | DTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVIS |
| DTAGQ.R.R....A..RGA.GFIL..DI.NEESFNA..DWSTQ.KT..WD.AQV..VG..C......... | |
| Retrocopy | DTAGQKRSRAFAAASSRGAAGFILVRDISNEESFNAGRDWSTQLKTHPWDDAQVRQVGTRCPRGPAGGVA |
| Parental | TERGQHLGEQLGFEFFETSAKDNVNVKQTFERLVDIICEKMSESLE-TDPAITAAKQNTRLKETPPPPQP |
| ..R.Q.L....GFEFF..SAK...NVK.TF..LV..ICE.MSESL...DPA.TAA.Q...L.....PP.. | |
| Retrocopy | *ARRQ-LAGRAGFEFFQASAKHSINVKRTFQCLVKVICE-MSESLDAADPAVTAAEQGPQLTHRQAPPLQ |
| Parental | NC |
| .C | |
| Retrocopy | DC |
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 | 2 .14 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 10 .59 RPM |
| SRP012922_heart | 0 .00 RPM | 0 .00 RPM |
| SRP012922_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP012922_liver | 0 .00 RPM | 0 .00 RPM |
| SRP012922_lung | 0 .00 RPM | 0 .31 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 0 .00 RPM |
| SRP012922_spleen | 0 .00 RPM | 1 .14 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_1758 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 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000023965 | 3 retrocopies | |
| Dasypus novemcinctus | ENSDNOG00000025047 | 1 retrocopy |
retro_dnov_1758 ,
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