RetrogeneDB ID: | retro_dnov_1773 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_2941:119652..120206(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TMEM27 | ||
| Ensembl ID: | ENSDNOG00000019011 | ||
| Aliases: | None | ||
| Description: | transmembrane protein 27 [Source:HGNC Symbol;Acc:29437] |
Retrocopy-Parental alignment summary:
>retro_dnov_1773
GATGGAGAAAATGCTTTCAAAGTGAGACTTAGTATCAGAACAGCTCTGGGAGATAAAGCATATGCCTGGGATTCAAATGA
AGAATATCTCTTCAAAGCAATGGTGGCTTTCTCCATGAGAAAAGTTCCCAACAGAGAAACAACTGAAATTTCCCATGTCC
TCCTTTGCAATGTAACCCAGCGGGTGTCATTCTGGTTTGTGGTTACAGATCCTTTGAAAAACTACACCCTTCCTGCTGTG
GAGGTAGAATCAGCCATAAGAATGAATAGGAACCGGATCAACAATGCTTTCTTTTTGAATGACCAGACTCTGGAATTTTT
AAAAATTCCTTCCACTCTTGCACCATCCACTGACCCAGCTGTGCGCATCTGGATTATCATCTTTGGTGTGATATTTTGTA
TCGTCATAGTTGCAGTCATGCTACTGGTTTTATCAGGGATTCGCCGAACGTAGAAGAAAAAACAAAGAAGCATCGGAAGT
GGATGAGGCCGAAGATAAAGTGAAGTCACGATCACAATTGAAAACGGTATCGCTGCGATCTGCTGGACACTAAA
ORF - retro_dnov_1773 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 93.09 % |
| Parental protein coverage: | 83.33 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | DGENAFKVRLSIRTALGDKAYAWDSNEEYLFKAMVAFSMRKVPNRETTEISHVLLCNVTQRVSFWFVVTD |
| DGENAFKVRLSIRTALGDKAYAWDSNEEYLFKAMVAFSMRKVPNRETTEISHVLLCNVTQRVSFWFVVTD | |
| Retrocopy | DGENAFKVRLSIRTALGDKAYAWDSNEEYLFKAMVAFSMRKVPNRETTEISHVLLCNVTQRVSFWFVVTD |
| Parental | PLKNYTLPAVEVESAIRMNRNRINNAFFLNDQTLEFLKIPSTLAPPTDSSVPIWIIIFGVIFCIVIVAVM |
| PLKNYTLPAVEVESAIRMNRNRINNAFFLNDQTLEFLKIPSTLAP.TD..V.IWIIIFGVIFCIVIVAVM | |
| Retrocopy | PLKNYTLPAVEVESAIRMNRNRINNAFFLNDQTLEFLKIPSTLAPSTDPAVRIWIIIFGVIFCIVIVAVM |
| Parental | LLVLSGIR-QRRRKNKEPSEVDEAEDK-GEATITIENGIP-CDPLDTK |
| LLVLSGIR..RRRKNKE.SEVDEAEDK..E.TITIENGI..CD.LDTK | |
| Retrocopy | LLVLSGIR>ERRRKNKEASEVDEAEDK<SEVTITIENGIA<CDLLDTK |
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 | 0 .97 RPM |
| SRP012922_cerebellum | 0 .41 RPM | 1 .24 RPM |
| SRP012922_heart | 1 .86 RPM | 2 .09 RPM |
| SRP012922_kidney | 2 .74 RPM | 223 .69 RPM |
| SRP012922_liver | 0 .46 RPM | 5 .42 RPM |
| SRP012922_lung | 0 .31 RPM | 0 .76 RPM |
| SRP012922_quadricep_muscle | 0 .35 RPM | 0 .52 RPM |
| SRP012922_spleen | 0 .23 RPM | 2 .29 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_1773 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000019011 | 1 retrocopy |
retro_dnov_1773 ,
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