RetrogeneDB ID: | retro_dnov_1044 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_140463:3556..3838(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RPA3 | ||
| Ensembl ID: | ENSDNOG00000011718 | ||
| Aliases: | None | ||
| Description: | replication protein A3, 14kDa [Source:HGNC Symbol;Acc:10291] |
Retrocopy-Parental alignment summary:
>retro_dnov_1044
ATGGTGGACGTGATGGAGTTGCTGAAGTGGCACATCAATGCCAGCAGGCTAGCTCAGTTCATCGACTGGCCCGTATGCTT
CATAGGGAGACCGGAAAAGATTCATCCCACTGGGAAAATGTTTATTCTTTCAGATGGAGAAGGAAAAAATGGAACCATTG
AGTTGATGGAGCCACTTGATGAAGAAATCTCTGGAATCGTGGAAGTAGCCGGAAGAGTGACGAACAAGGCAACCATCATG
TGTGCATCTTAAATCCAGTTTAAAGAAGATAACCATCCTTTT
ORF - retro_dnov_1044 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 90.43 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MVDVMELPKWRINASMLAQFIDRPVCFVGRLEKIHPTEKMFILSDGEGKNGTIELMEPLDEEISGIVEVV |
| MVDVMEL.KW.INAS.LAQFID.PVCF.GR.EKIHPT.KMFILSDGEGKNGTIELMEPLDEEISGIVEV. | |
| Retrocopy | MVDVMELLKWHINASRLAQFIDWPVCFIGRPEKIHPTGKMFILSDGEGKNGTIELMEPLDEEISGIVEVA |
| Parental | GRVTNKATIMCASYIQFKEDNHPF |
| GRVTNKATIMCAS.IQFKEDNHPF | |
| Retrocopy | GRVTNKATIMCAS*IQFKEDNHPF |
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 | 7 .58 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 8 .66 RPM |
| SRP012922_heart | 0 .00 RPM | 3 .71 RPM |
| SRP012922_kidney | 0 .00 RPM | 6 .84 RPM |
| SRP012922_liver | 0 .00 RPM | 3 .87 RPM |
| SRP012922_lung | 0 .15 RPM | 9 .77 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 4 .67 RPM |
| SRP012922_spleen | 0 .11 RPM | 12 .25 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_1044 was not experimentally validated.