RetrogeneDB ID: | retro_dnov_1834 | ||
Retrocopylocation | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_3263:102736..103194(+) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | NUDT1 | ||
| Ensembl ID: | ENSDNOG00000008845 | ||
| Aliases: | None | ||
| Description: | nudix (nucleoside diphosphate linked moiety X)-type motif 1 [Source:HGNC Symbol;Acc:8048] |
Retrocopy-Parental alignment summary:
>retro_dnov_1834
GGCACCATGGGCACCTCCAGGCTCTATACGTTGGTGCTGGTGCTGCAGCCTCAGCGAGTTCTCCTCGGCATGAAGAAATG
AGGCTTTGGGGTGGCTGGTGGAATGGCTTTGGGGCGAAGTGCAAGAAGGAGAGACCATCAAGGATGGGGCCAAGAGGGAG
CGCAGGAGGAGAGTGGCCCTAGTGGACATGCTGCACAAGATGGGCTGGATGGTGTTTGAGTTTGTGGGGGAGCCTGAACG
GATGGACGTGCACATCTTCTGTACAGACAGCGTCGGGGAACGCCCATGGAGAGTGAGGAAATGCATCCCCCATGGTTCCA
AGTAGACCGAATCCCTTTTGGTGCCATGTGGCCCGAAGACAGCTACTGGCTTCCCCTCCTGCTCCAGGAGAAGTGCCATG
GGTACTTCAAGTTCCAGGGCCAAAACACATCGTGGACTACACGCTGTGGGAAGTGGAC
GGCACCATGGGCACCTCCAGGCTCTATACGTTGGTGCTGGTGCTGCAGCCTCAGCGAGTTCTCCTCGGCATGAAGAAATG
AGGCTTTGGGGTGGCTGGTGGAATGGCTTTGGGGCGAAGTGCAAGAAGGAGAGACCATCAAGGATGGGGCCAAGAGGGAG
CGCAGGAGGAGAGTGGCCCTAGTGGACATGCTGCACAAGATGGGCTGGATGGTGTTTGAGTTTGTGGGGGAGCCTGAACG
GATGGACGTGCACATCTTCTGTACAGACAGCGTCGGGGAACGCCCATGGAGAGTGAGGAAATGCATCCCCCATGGTTCCA
AGTAGACCGAATCCCTTTTGGTGCCATGTGGCCCGAAGACAGCTACTGGCTTCCCCTCCTGCTCCAGGAGAAGTGCCATG
GGTACTTCAAGTTCCAGGGCCAAAACACATCGTGGACTACACGCTGTGGGAAGTGGAC
ORF - retro_dnov_1834 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 76.25 % |
| Parental protein coverage: | 97.5 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | GAMGTSRLYTLVLVLQPQRVLLGMKKRGFGA-GRWNGFG-GKVQEGETIEAGAKRELQEESGLAADTLHK |
| G.MGTSRLYTLVLVLQPQRVLLGMKK.GFG..G.WNGFG.G.VQEGETI..GAKRE......L..D.LHK | |
| Retrocopy | GTMGTSRLYTLVLVLQPQRVLLGMKK*GFGV<GWWNGFG<GEVQEGETIKDGAKRERRRRVALV-DMLHK |
| Parental | VGRIVFEFVGEPEQMDVHIFRADSV-RGTPTESEEMRPQWFPVDQIPFGDMWPDDSYWLPLLLQKKKFHG |
| .G..VFEFVGEPE.MDVHIF..DSV.RGTP.ESEEM.P.WF.VD.IPFG.MWP.DSYWLPLLLQ..K.HG | |
| Retrocopy | MGWMVFEFVGEPERMDVHIFCTDSV<RGTPMESEEMHPPWFQVDRIPFGAMWPEDSYWLPLLLQ-EKCHG |
| Parental | YFKFQGQDT-IVDYTLREVD |
| YFKFQGQ.T.IVDYTL.EVD | |
| Retrocopy | YFKFQGQNT<IVDYTLWEVD |
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 | 17 .50 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 8 .39 RPM |
| SRP012922_heart | 0 .00 RPM | 3 .02 RPM |
| SRP012922_kidney | 0 .00 RPM | 15 .06 RPM |
| SRP012922_liver | 0 .00 RPM | 4 .80 RPM |
| SRP012922_lung | 0 .00 RPM | 8 .40 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 3 .46 RPM |
| SRP012922_spleen | 0 .00 RPM | 9 .27 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_1834 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 | ENSDNOG00000008845 | 1 retrocopy |
retro_dnov_1834 ,
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