RetrogeneDB ID: | retro_dnov_1611 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_2470:79787..80244(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDNOG00000001179 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C12orf43 | ||
| Ensembl ID: | ENSDNOG00000000382 | ||
| Aliases: | None | ||
| Description: | chromosome 12 open reading frame 43 [Source:HGNC Symbol;Acc:25719] |
Retrocopy-Parental alignment summary:
>retro_dnov_1611
AGTAAGGTACAGAAAGCTCACTCGGAGGACGGTGGCTTCTGCATCTTCTTCACATCCATCCCTGAAGGCCCTGAGAAGGA
AGCTTCTCCCCAGTCCTGCCGAAAGCGACTCCCCTCCAGCTCCAGCAGCGATGATAGCGACAGAGGGGTGGAAGTGCCAG
GAGGCAGCTTGGCAGCTTCGGACATCCTCCAACAGTCAGTCATCCACGGCGCTGTCAAGGTGATTAAAGAGGAAAAGAGG
CAGAAAAAGGAAGCCAAGAGGGAGGCCAGTGCCGCCTCGGCCACAGCCACCACGGCCACAGGCAGGGTTCAGGAGCAGGA
AAAGGAGGCAGCCAAGCTTAACGGGCACCAGACATCACTTGGGATCAAAAAGAAGAAAAGGAAGAAAAAGGCCCAAGAAG
GACAGTGAAGCGGCTCCCTTCTCACGAGCGAAGAGTGCAGCAGCGATGCCTGTAAAC
ORF - retro_dnov_1611 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.85 % |
| Parental protein coverage: | 58.3 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | AEVQKAHSEDDGFRLFFTSIPEA-EKEASPQPCRKRLPSSSS-DNSD-EEWKRCQEAA-VSASDILQESA |
| ..VQKAHSED.GF..FFTSIPE..EKEASPQ.CRKRLPSSSS.D.SD.E.WK.CQEAA...ASDILQ.S. | |
| Retrocopy | SKVQKAHSEDGGFCIFFTSIPEGPEKEASPQSCRKRLPSSSSSDDSD>EGWK-CQEAA<LAASDILQQSV |
| Parental | IHGPVKVIKEEKKQKKKAKKEASTTSATATTATGRVQEQEKEATKLNGDQTSLGIKKKKRKKKV-KKDSE |
| IHG.VKVIKEEK.QKK.AK.EAS..SATATTATGRVQEQEKEA.KLNG.QTSLGIKKKKRKKK..KKDSE | |
| Retrocopy | IHGAVKVIKEEKRQKKEAKREASAASATATTATGRVQEQEKEAAKLNGHQTSLGIKKKKRKKKA>KKDSE |
| Parental | ASAFPRAKTAAAVPVN |
| A..F.RAK.AAA.PVN | |
| Retrocopy | AAPFSRAKSAAAMPVN |
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 | 4 .28 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 9 .21 RPM |
| SRP012922_heart | 0 .00 RPM | 2 .55 RPM |
| SRP012922_kidney | 0 .00 RPM | 4 .93 RPM |
| SRP012922_liver | 0 .00 RPM | 2 .48 RPM |
| SRP012922_lung | 0 .00 RPM | 3 .36 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 1 .04 RPM |
| SRP012922_spleen | 0 .00 RPM | 4 .92 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_1611 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 | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000000382 | 1 retrocopy |
retro_dnov_1611 ,
|
| Microcebus murinus | ENSMICG00000008728 | 2 retrocopies | |
| Tarsius syrichta | ENSTSYG00000009317 | 2 retrocopies |