RetrogeneDB ID: | retro_dnov_515 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_5571:9349..9964(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KCTD10 | ||
| Ensembl ID: | ENSDNOG00000007621 | ||
| Aliases: | None | ||
| Description: | potassium channel tetramerization domain containing 10 [Source:HGNC Symbol;Acc:23236] |
Retrocopy-Parental alignment summary:
>retro_dnov_515
AGCCAAATAAAATACTACCTGGTCCAGGGCCTACTGGAAGAATGCCAGGCGGCCCTACAAAACAAAGATACTTATGAGCC
TTTCTGAAAGTTCCTGTCATCACCTCTTCCAAGGAAGAACAAAACTTTCTAGTGACTTCAAATAAGCCAGCCGTGAAGGT
GCTCTACAATAGAAGTAACAACAGATACTCATATACCAGTAATTCTAACGACAACATGTGGAAAAACATTGAACTGTTTG
ATAAGCTGTCTCTGCACTTTAATGGAAGGGTCCTGTTCATAAAAGATGTCATTGGGGATGAGATCTGCTCCTGGTCCTTT
TATGGTCAGGGATGCAAGATTGCTGAAGTCTGTGGTACCTTCATCGTTTATGCCTCTGAGAAGAAACAGACCAAGGTAGA
GTTCCCTTCAGCCCGGATTTATGAAGAGACCCTAAACATCTTGCTGTATGAGGCCCAGGACAGCCAGGGACCTGACAATG
CACTCCTGGAGGCCACAGGCAGGGCAGCCGGGTGCTCGCAGCATCTGGACGAGGATGAGGAGCAGAAGGAGAGTGGATGG
AACGCGGGCGTCGATCCACCTCAAGCATCCAGACGACCGCGCCTATCTCCACCGG
ORF - retro_dnov_515 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.82 % |
| Parental protein coverage: | 65.4 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | AEAKYYLVQGLVEECQAALQNKDTYEPF-CKVPVITSPKEEQKLIATSNKPAVKLLYNRSNNKYSYTSNS |
| ...KYYLVQGL.EECQAALQNKDTYEPF..KVPVITS.KEEQ....TSNKPAVK.LYNRSNN.YSYTSNS | |
| Retrocopy | SQIKYYLVQGLLEECQAALQNKDTYEPF<LKVPVITSSKEEQNFLVTSNKPAVKVLYNRSNNRYSYTSNS |
| Parental | DDNMLKNIELFDKLSLRFNGRVLFIKDVIGDEICCWSFYGQGRKIAEVCCTSIVYATEKKQTKVEFPEAR |
| .DNM.KNIELFDKLSL.FNGRVLFIKDVIGDEIC.WSFYGQG.KIAEVC.T.IVYA.EKKQTKVEFP.AR | |
| Retrocopy | NDNMWKNIELFDKLSLHFNGRVLFIKDVIGDEICSWSFYGQGCKIAEVCGTFIVYASEKKQTKVEFPSAR |
| Parental | IYEETLNILLYEAQDGRGPDNALLEATGGAAGRSHHLDEDEER-ERERIERVRR-IHIKRPDDRAHLHQ |
| IYEETLNILLYEAQD..GPDNALLEATG.AAG.S.HLDEDEE..E.E..ER.RR.IH.K.PDDRA.LH. | |
| Retrocopy | IYEETLNILLYEAQDSQGPDNALLEATGRAAGCSQHLDEDEEQ<EGEWMERGRR<IHLKHPDDRAYLHR |
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 .19 RPM | 69 .43 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 6 .74 RPM |
| SRP012922_heart | 0 .00 RPM | 2 .78 RPM |
| SRP012922_kidney | 0 .00 RPM | 4 .65 RPM |
| SRP012922_liver | 0 .00 RPM | 3 .56 RPM |
| SRP012922_lung | 0 .00 RPM | 27 .18 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 2 .77 RPM |
| SRP012922_spleen | 0 .00 RPM | 27 .93 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_515 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 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000007621 | 1 retrocopy |
retro_dnov_515 ,
|
| Dasypus novemcinctus | ENSDNOG00000010870 | 1 retrocopy | |
| Sus scrofa | ENSSSCG00000009934 | 1 retrocopy | |
| Tursiops truncatus | ENSTTRG00000006406 | 1 retrocopy |