RetrogeneDB ID: | retro_dnov_2571 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_86338:2719..3010(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PTGES3 | ||
| Ensembl ID: | ENSDNOG00000011310 | ||
| Aliases: | None | ||
| Description: | prostaglandin E synthase 3 (cytosolic) [Source:HGNC Symbol;Acc:16049] |
Retrocopy-Parental alignment summary:
>retro_dnov_2571
ATGCAGCCTGCTTCTGCAAAGTTGTATGATGGAAAATTCTATGTCTTTATTGAATTGTACAGTAAAGATGTTAATGTAAA
TTTTGCAAAGTCTAAACTTACATTTAGTTGTCTTGGAGGAAGTGACCATTTTAAACATTTAGATGAAATTGATCTTTTTC
ATTGTGTTGATCCAAATGATTCCAAGCATTAAAGAGCAGACAGAGGAATCTTATGTTGTTTAGGAAAAGTAGAATCTCGC
CAATTATGGCCAGGGTTAACAAAAGAAAGGGCAGGGAAGCAGACTTGGCTC
ORF - retro_dnov_2571 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 76.0 % |
| Parental protein coverage: | 61.88 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MQPASAKWYDRRDYVFIEFCVEDSKDVNVNFEKSKLTFSCLGGSDNFKHLNEIDLFHCIDPNDSKHKRTD |
| MQPASAK.YD...YVFIE.....SKDVNVNF.KSKLTFSCLGGSD.FKHL.EIDLFHC.DPNDSKH.R.D | |
| Retrocopy | MQPASAKLYDGKFYVFIELY---SKDVNVNFAKSKLTFSCLGGSDHFKHLDEIDLFHCVDPNDSKH*RAD |
| Parental | RSILCCLRKGESGQSWPRLTKERA-KLNWL |
| R.ILCCL.K.ES.Q.WP.LTKERA.K..WL | |
| Retrocopy | RGILCCLGKVESRQLWPGLTKERAGKQTWL |
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 | 48 .42 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 46 .19 RPM |
| SRP012922_heart | 0 .00 RPM | 20 .65 RPM |
| SRP012922_kidney | 0 .00 RPM | 32 .86 RPM |
| SRP012922_liver | 0 .00 RPM | 37 .31 RPM |
| SRP012922_lung | 0 .00 RPM | 56 .66 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 21 .12 RPM |
| SRP012922_spleen | 0 .00 RPM | 56 .43 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_2571 was not experimentally validated.