RetrogeneDB ID: | retro_dnov_3 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_70711:7517..8465(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDNOG00000008207 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CEPT1 | ||
| Ensembl ID: | ENSDNOG00000017013 | ||
| Aliases: | None | ||
| Description: | choline/ethanolamine phosphotransferase 1 [Source:HGNC Symbol;Acc:24289] |
Retrocopy-Parental alignment summary:
>retro_dnov_3
GCACCATACTGGACATTCCTTTTATGTGCCCTGGGACTCTTTTTCTACCAGTCACTGGATGCAATTGATGGGAAACAAGC
CAGAAGAACAAATTCTTGTTCTCCTTTAGGGGAACTTTTTGACCGTGGTGGTGACTCTCTTTCCACAGTGTTAATGGCAG
TTGGAGCATCAATTGCTGTTCGCTTAGGAACCCATCCTGACTGGTTGTTTTTCTGCTCTTTTATTGGAATGTTCATGTTT
TATTGTGCTCACGGGCAGACTTATGTTTCAGGCGTATTGAGGTTTGGAAAAGTGGATGTAACTGAAATCCAGGTAGGTTT
AATAATCGTCTTTGTGTTGTCTACATTTGGAGGAGCAACAATGTGGGACTATACGATACCCATTCTAGAAATAAAATTGA
AGATTGTTCCAGTTCTTGGAGTAGTAGGTGGAGCAGTTTTTTCCTGTTCAAATTATTTCCATGTTATCCTTCATGGTAGT
GTTGGCAAGAATGGATCTACTATAGCAGGCACCAGTGTCTTGTCACCTGGACTCCACATTGGACTAATTATCATACTGGC
AATAATGATCTATAAAAAGTCAGCAACTAATGTGTTTGAAAAACATCCTTGTCTTTATACCTTAATGTTTGGATGTGTCT
TTGCTAAAGTTGCACAAAAACTAGTGGTAGCTCACATGATGAAAAGTGAACTATACCTTCAAGACACTGTGTTCATTGGG
CCAGCTCTTTTATTTTTAGATCAATACTTTAATAATTTTGTAGATGAATATATTGTTCTCTGGATAGCAATGGTCATTGC
TTCATTTGATATGACGGCATACTTTAGTGCTTTGTGCCTGCAAATTTCAAGACACCTTCATATAAATATCTTCAAGACTT
CATGTCATCAAGCACCTGAACAGGTTCAAGTTCTTGCTTCAAAGAATCATCAGAATAATATGGACTGA
ORF - retro_dnov_3 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 66.44 % |
| Parental protein coverage: | 74.87 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | APLWAYIACACGLFIYQSLDAIDGKQARRTNSSSPLGELFDHGCDSLSTVFVVLGTCIAVQLGTNPDWMF |
| AP.W....CA.GLF.YQSLDAIDGKQARRTNS.SPLGELFD.G.DSLSTV....G..IAV.LGT.PDW.F | |
| Retrocopy | APYWTFLLCALGLFFYQSLDAIDGKQARRTNSCSPLGELFDRGGDSLSTVLMAVGASIAVRLGTHPDWLF |
| Parental | FCCFAGTFMFYCAHWQTYVSGTLRFGIIDVTEVQIFIIIMHLLAVIGGPPFWQSMIPVLNIQMKIFPALC |
| FC.F.G.FMFYCAH.QTYVSG.LRFG..DVTE.Q...II...L...GG...W...IP.L.I..KI.P.L. | |
| Retrocopy | FCSFIGMFMFYCAHGQTYVSGVLRFGKVDVTEIQVGLIIVFVLSTFGGATMWDYTIPILEIKLKIVPVLG |
| Parental | TVAGTIFSCTNYFRVIFTGGVGKNGSTIAGTSVLSPFLHIGSVITLAAVIYKKSAVQLFEKHPCLYILTF |
| .V.G..FSC.NYF.VI..G.VGKNGSTIAGTSVLSP.LHIG..I.LA..IYKKSA...FEKHPCLY.L.F | |
| Retrocopy | VVGGAVFSCSNYFHVILHGSVGKNGSTIAGTSVLSPGLHIGLIIILAIMIYKKSATNVFEKHPCLYTLMF |
| Parental | GFVSAKITNKLVVAHMTKSEMHLHDTAFIGPALLFLDQYFNSFIDEYIVLWIALVFSFFDLIRYCVSVCN |
| G.V.AK...KLVVAHM.KSE..L.DT.FIGPALLFLDQYFN.F.DEYIVLWIA.V...FD...Y....C. | |
| Retrocopy | GCVFAKVAQKLVVAHMMKSELYLQDTVFIGPALLFLDQYFNNFVDEYIVLWIAMVIASFDMTAYFSALCL |
| Parental | QIASHLHIHVFR |
| QI..HLHI..F. | |
| Retrocopy | QISRHLHINIFK |
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 | 116 .10 RPM | 39 .87 RPM |
| SRP012922_cerebellum | 41 .65 RPM | 28 .46 RPM |
| SRP012922_heart | 73 .09 RPM | 7 .43 RPM |
| SRP012922_kidney | 127 .86 RPM | 24 .09 RPM |
| SRP012922_liver | 118 .27 RPM | 34 .21 RPM |
| SRP012922_lung | 92 .55 RPM | 19 .09 RPM |
| SRP012922_quadricep_muscle | 62 .31 RPM | 7 .27 RPM |
| SRP012922_spleen | 86 .19 RPM | 38 .57 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_3 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 3 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000007908 | 3 retrocopies | |
| Dasypus novemcinctus | ENSDNOG00000017013 | 1 retrocopy |
retro_dnov_3 ,
|
| Otolemur garnettii | ENSOGAG00000010799 | 1 retrocopy |