RetrogeneDB ID: | retro_dnov_2249 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_58366:44..332(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDNOG00000018078 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CDK2AP1 | ||
| Ensembl ID: | ENSDNOG00000017145 | ||
| Aliases: | None | ||
| Description: | cyclin-dependent kinase 2 associated protein 1 [Source:HGNC Symbol;Acc:14002] |
Retrocopy-Parental alignment summary:
>retro_dnov_2249
GGAATTGTCCAGGCTCCTTCTACCAGTATGGCGACATCCTCGCAGTACCACCAGCTGCTGAGTGACTATGGGACCCATCC
CTTGGCTACACCCAGGGAACTGGGAAGAGTCAGGTGCCCCAAAGCATATATGCTGAGCTGCTGGCCCTCATCCAAGAGCT
GGGGAAAGAGATCAGACCCACCTACGCAGGGAGCAAGAGCGCCATGAAGAGATTGAATTCGAGGCATCTTTCATGCTAAA
GGACTGGTTCGGGAGTGCTTGGCCAAAACAGAACAGAATGCCAGATCC
ORF - retro_dnov_2249 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.65 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | GSVHSPSTSMATSSQYRQLLSDYGP-PSLGYTQGTGNSQVPQSKYAELLAIIEELGKEIRPTYAGSKSAM |
| G.V..PSTSMATSSQY.QLLSDYG..PSLGYTQGTG.SQVPQS.YAELLA.I.ELGKEIRPTYAGSKSAM | |
| Retrocopy | GIVQAPSTSMATSSQYHQLLSDYGT<PSLGYTQGTGKSQVPQSIYAELLALIQELGKEIRPTYAGSKSAM |
| Parental | ERLK-RGIIHARGLVRECLAETERNARS |
| .RL..RGI.HA.GLVRECLA.TE.NARS | |
| Retrocopy | KRLN>RGIFHAKGLVRECLAKTEQNARS |
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 .86 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 9 .90 RPM |
| SRP012922_heart | 0 .00 RPM | 5 .57 RPM |
| SRP012922_kidney | 0 .00 RPM | 4 .65 RPM |
| SRP012922_liver | 0 .00 RPM | 1 .24 RPM |
| SRP012922_lung | 0 .00 RPM | 8 .25 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 2 .94 RPM |
| SRP012922_spleen | 0 .00 RPM | 12 .93 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_2249 was not experimentally validated.