RetrogeneDB ID: | retro_dnov_1994 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_4116:4614..4861(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PFDN5 | ||
| Ensembl ID: | ENSDNOG00000013002 | ||
| Aliases: | None | ||
| Description: | prefoldin subunit 5 [Source:HGNC Symbol;Acc:8869] |
Retrocopy-Parental alignment summary:
>retro_dnov_1994
ATGTACCTCGCTGTGAAGTTACATGAAATGGAACATGTGCTCATTGATGTGCAAACTGGCTACTATTAGACAGCTGAGGA
TGTGAAGGACTTCTTCAAGAGGAAGATAGATTTCCTCACTAAGCAGATGGAGAAAATCCAGTCAGCTTTGCTGGCAAAGC
ATGCCATGAAACAGACTGCCATGAGCTGATGTGCCAAAAGATTCGCATCTCACAATGCAGGGAGCAATGCAGGCTACTGC
CAAGGCC
ORF - retro_dnov_1994 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 71.26 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | MYVPGKLHDVEHVLIDVGTGYYVEKTAEDAKEFFKRKIDFLTKQMEKIQPALQEKHAMKQAVM-EMMSQK |
| MY...KLH..EHVLIDV.TGYY...TAED.K.FFKRKIDFLTKQMEKIQ.AL..KHAMKQ..M.E.M.QK | |
| Retrocopy | MYLAVKLHEMEHVLIDVQTGYY*--TAEDVKDFFKRKIDFLTKQMEKIQSALLAKHAMKQTAM<ELMCQK |
| Parental | IQ-QLTALGATQATAKA |
| I...LT..GA.QATAKA | |
| Retrocopy | IR<HLTMQGAMQATAKA |
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 | 24 .31 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 27 .08 RPM |
| SRP012922_heart | 0 .00 RPM | 33 .64 RPM |
| SRP012922_kidney | 0 .00 RPM | 55 .31 RPM |
| SRP012922_liver | 0 .00 RPM | 15 .95 RPM |
| SRP012922_lung | 0 .00 RPM | 47 .96 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 14 .02 RPM |
| SRP012922_spleen | 0 .00 RPM | 33 .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_1994 was not experimentally validated.