RetrogeneDB ID: | retro_dnov_2240 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_5795:97594..97915(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FUNDC1 | ||
| Ensembl ID: | ENSDNOG00000014551 | ||
| Aliases: | None | ||
| Description: | FUN14 domain containing 1 [Source:HGNC Symbol;Acc:28746] |
Retrocopy-Parental alignment summary:
>retro_dnov_2240
TCTTCTGGATCTATGGTTGAAAAATTCTCAGTGGCCATTCAGATTGTAATGGGCAAAGTGACTGGCTCATGTGCAGGATT
TTTGTTTCAGAAAGTTGGAAAACTTGCAGCAACTGCAGTAGTTAGTGGCTTCCTTCACCTTCAGACTGCCAATCACAGTG
GTTGTGGGCAGATTGACTGGAAGAGAGTTGAAAAAGATATAAACACAGCCAAAAGACAGATTAAGAAATGTGCAAATAAA
GCAGCACCTGAAATCAACAATACAATTGAGGAAGCAACAAAATTTATCAAACAGAACATTGTGATATCCAGTGAATTTGT
A
ORF - retro_dnov_2240 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.7 % |
| Parental protein coverage: | 73.79 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | SSGPMVEKYSVATQIVMGGVTGWCAGFLFQKVGKLAATAVGGGFLLLQXXXXXXXXXXDWKRVKKDVTKA |
| SSG.MVEK.SVA.QIVMG.VTG.CAGFLFQKVGKLAATAV..GFL.LQ..........DWKRV.KD...A | |
| Retrocopy | SSGSMVEKFSVAIQIVMGKVTGSCAGFLFQKVGKLAATAVVSGFLHLQTANHSGCGQIDWKRVEKDINTA |
| Parental | KRQIKKRANKAAPEINNIIEEATEFIKQNIVISSGFV |
| KRQIKK.ANKAAPEINN.IEEAT.FIKQNIVISS.FV | |
| Retrocopy | KRQIKKCANKAAPEINNTIEEATKFIKQNIVISSEFV |
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 | 5 .83 RPM |
| SRP012922_cerebellum | 1 .10 RPM | 8 .25 RPM |
| SRP012922_heart | 0 .23 RPM | 9 .51 RPM |
| SRP012922_kidney | 0 .00 RPM | 9 .86 RPM |
| SRP012922_liver | 0 .15 RPM | 4 .33 RPM |
| SRP012922_lung | 0 .00 RPM | 6 .41 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 6 .40 RPM |
| SRP012922_spleen | 0 .00 RPM | 10 .87 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_2240 was not experimentally validated.