RetrogeneDB ID: | retro_dnov_1241 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_16828:13145..13736(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MAPK3 | ||
| Ensembl ID: | ENSDNOG00000002191 | ||
| Aliases: | None | ||
| Description: | mitogen-activated protein kinase 3 [Source:HGNC Symbol;Acc:6877] |
Retrocopy-Parental alignment summary:
>retro_dnov_1241
CTGCTGCTCAACACCACCTGCGATCTCAAGATCTGCGACTTTGGCTTGGCCCGTGTGGCAGACCCGGACCATGATCACAC
AGGGTTCCTGACAGAGTATGTAGCCACACGTTGGTACAGGGCTCCAGAGATCATGTTGAATTCCAGGGGGTATACCAAGT
CCATTGACATTGGGTCGGTAGGCTGTATTCTGGCAGAGATGCTTTCCAACAGGCCCATCTTTCCAGGAAAACATTACCTT
GACCAGCTCAACCACATTCTGGGTATTCTTGGATCCCCATCATAGGAAGACCTGAATTGTATTATAAACTTAAAAGCTAG
AAACTATTTGCTTTCTCTTCCACACAAAAATAAGGTGCCATGGAACAGGCTCTTCCCAAATGCTGATTCCAAAGCTCTGG
ACTTACTGGATAAAATGTTGACGTTCAACCCTCACAAGAGGATTGAAGTAGAACAGGCTCTGGCCCACCCGCATCTGCAG
CAGTATTATGATCCAAGTGATGAGCCTGTTGCTGAAGCACCATTCAAGTTTGACATGGAATTGGATGACTTGCCTAAGGA
AAAACTCAAAGAACTCGTTTTCAAAGTGACT
ORF - retro_dnov_1241 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 85.28 % |
| Parental protein coverage: | 61.18 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LLINTTCDLKICDFGLARIADPEHDHTGFLTEYVATRWYRAPEIMLNSKGYTKSIDIWSVGCILAEMLSN |
| LL.NTTCDLKICDFGLAR.ADP.HDHTGFLTEYVATRWYRAPEIMLNS.GYTKSIDI.SVGCILAEMLSN | |
| Retrocopy | LLLNTTCDLKICDFGLARVADPDHDHTGFLTEYVATRWYRAPEIMLNSRGYTKSIDIGSVGCILAEMLSN |
| Parental | RPIFPGKHYLDQLNHILGILGSPSQEDLNCIINLKARNYLQSLPSKTKVAWAKLFPKSDPKALELLDRML |
| RPIFPGKHYLDQLNHILGILGSPS.EDLNCIINLKARNYL.SLP.K.KV.W..LFP..D.KAL.LLD.ML | |
| Retrocopy | RPIFPGKHYLDQLNHILGILGSPS*EDLNCIINLKARNYLLSLPHKNKVPWNRLFPNADSKALDLLDKML |
| Parental | TFNPNKRITVEEALAHPYLEQYYDPTDEPVAEEPFTFDMELDDLPKERLKELIFQET |
| TFNP.KRI.VE.ALAHP.L.QYYDP.DEPVAE.PF.FDMELDDLPKE.LKEL.F..T | |
| Retrocopy | TFNPHKRIEVEQALAHPHLQQYYDPSDEPVAEAPFKFDMELDDLPKEKLKELVFKVT |
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 | 21 .39 RPM | 169 .19 RPM |
| SRP012922_cerebellum | 15 .40 RPM | 64 .34 RPM |
| SRP012922_heart | 5 .57 RPM | 18 .33 RPM |
| SRP012922_kidney | 12 .05 RPM | 57 .77 RPM |
| SRP012922_liver | 7 .12 RPM | 29 .26 RPM |
| SRP012922_lung | 12 .68 RPM | 159 .14 RPM |
| SRP012922_quadricep_muscle | 15 .92 RPM | 16 .44 RPM |
| SRP012922_spleen | 19 .12 RPM | 80 .35 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_1241 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 6 parental genes, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000017108 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000002191 | 1 retrocopy |
retro_dnov_1241 ,
|
| Loxodonta africana | ENSLAFG00000017904 | 1 retrocopy | |
| Myotis lucifugus | ENSMLUG00000011284 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000007239 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000019601 | 1 retrocopy |