RetrogeneDB ID: | retro_dnov_737 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_103205:3235..3667(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | COX4I1 | ||
| Ensembl ID: | ENSDNOG00000017207 | ||
| Aliases: | None | ||
| Description: | cytochrome c oxidase subunit IV isoform 1 [Source:HGNC Symbol;Acc:2265] |
Retrocopy-Parental alignment summary:
>retro_dnov_737
AGCATCGTGAAGAGTGAAGCCTATGCTTCTCAGCTTATGTTTACCAGTGTGACTATCCCCTGCTTGATGTGGCTCATGTC
AAACACATGTCTGTCAGACAGAAAGCCTTGAAAGAGAAGGAGAAGGCCTCCTGGAGCAGGCTCTCCATTGATGAAAAAGT
TTAATTTTATCATACGAAATTCAAGGGGAGCTTTGCTGAAATGAACAGAAGCCCCAATGAGTGGAAGATGATTGTGGGCA
CTGCCCTGTTCTTCACTGGTGTTGTCACTGCTCTCTTCCAGATCTGGGAGTAATGCTATGTGTGTGGCCCATCCCAGACA
CCTTTGAGGAAGACTGGCAGCCAAGCAGACCAATACAATGCTTGGTATGAAAGTCAGCTCAGTCCAGAAGTTTTCTCCCA
AGTGGGATTACGACAAGAAAGAATAGAAAAAA
ORF - retro_dnov_737 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 66.89 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | SVVKSANFA-LPAYVDRRDYPLPDVAHVKHLSASQKALKEKEKASWSSLSMDEKVELYRMKFKESFAEMN |
| S.VKS...A...AYV...DYPL.DVAHVKH.S..QKALKEKEKASWS.LS.DEKV..Y..KFK.SFAEMN | |
| Retrocopy | SIVKSEAYA<FSAYVYQCDYPLLDVAHVKHMSVRQKALKEKEKASWSRLSIDEKV*FYHTKFKGSFAEMN |
| Parental | RGTNEWKTVVGAALFFIG-FTGLILIWEKHYVYG-PIPHTFDEDW-VAKQTKRMLDMKVSPIQGFSAKWD |
| R..NEWK..VG.ALFF.G..T.L..IWE..YV.G.PIP.TF.EDW..AKQT..ML.MKVS..Q.FS.KWD | |
| Retrocopy | RSPNEWKMIVGTALFFTGVVTALFQIWE*CYVCG<PIPDTFEEDW<AAKQTNTMLGMKVSSVQKFSPKWD |
| Parental | YDKNEWKK |
| YDK.E.KK | |
| Retrocopy | YDKKE*KK |
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 | 559 .68 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 280 .44 RPM |
| SRP012922_heart | 0 .00 RPM | 946 .92 RPM |
| SRP012922_kidney | 0 .00 RPM | 481 .88 RPM |
| SRP012922_liver | 0 .00 RPM | 210 .38 RPM |
| SRP012922_lung | 0 .00 RPM | 260 .09 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 707 .22 RPM |
| SRP012922_spleen | 0 .00 RPM | 254 .22 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_737 was not experimentally validated.