RetrogeneDB ID: | retro_dnov_2123 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_49537:6432..6785(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CYB5B | ||
| Ensembl ID: | ENSDNOG00000008313 | ||
| Aliases: | None | ||
| Description: | cytochrome b5 type B (outer mitochondrial membrane) [Source:HGNC Symbol;Acc:24374] |
Retrocopy-Parental alignment summary:
>retro_dnov_2123
GTAAAGCACAACTCTTTGAAGGAATTATGGCTGGTGATCCACAGTGGAGTCTACGATGTTTCCGGCTTCCTTGCCGAGCA
TCCTGGTGGAGAGGAAGTTCTGCTAGAACAAGATGGTACAAATGCAAGTGAGAGCTTTGAAGATATAGACCACTCCTTTG
ATGCCACAGAAATGCTGAAGCAGTATTATAGTGGTTATTTCCATCCGAATGACATTAAAACTGAAAGTGATAGCAAGCAT
CTTTCAAAACATAATACATGCAAAATTTGCTGGTCAATTGGGTTTTCCCCATCGTAGGTGCTATTCTCTTAGATTGCCTG
TTTCCTTACTATACATTCCAAAGCAGATCGTCC
ORF - retro_dnov_2123 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 61.34 % |
| Parental protein coverage: | 80.27 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | VASSSSKELWLVIHGQIYDVSSFLNEXXXXXEVLLEQAGVDASESFEDVGHSSDAREMLKQYYIGDVHPS |
| V...S.KELWLVIH...YDVS.FL.E.....EVLLEQ.G..ASESFED..HS.DA.EMLKQYY.G..HP. | |
| Retrocopy | VKHNSLKELWLVIHSGVYDVSGFLAEHPGGEEVLLEQDGTNASESFEDIDHSFDATEMLKQYYSGYFHPN |
| Parental | DIKTESGSKXXXXXXXXXXCWSY-WVFPIIGAILLGFLYRYYTSESRFS |
| DIKTES.SK..........CWS..WVFPI.GAILL..L..YYT..SR.S | |
| Retrocopy | DIKTESDSKHLSKHNTCKICWSI<WVFPIVGAILLDCLFPYYTFQSRSS |
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 | 16 .53 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 6 .46 RPM |
| SRP012922_heart | 0 .23 RPM | 7 .19 RPM |
| SRP012922_kidney | 0 .00 RPM | 16 .43 RPM |
| SRP012922_liver | 0 .15 RPM | 2 .48 RPM |
| SRP012922_lung | 0 .00 RPM | 8 .71 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 3 .98 RPM |
| SRP012922_spleen | 0 .00 RPM | 10 .42 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_2123 was not experimentally validated.