RetrogeneDB ID: | retro_dnov_991 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_131444:175..781(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RAN | ||
| Ensembl ID: | ENSDNOG00000009230 | ||
| Aliases: | None | ||
| Description: | RAN, member RAS oncogene family [Source:HGNC Symbol;Acc:9846] |
Retrocopy-Parental alignment summary:
>retro_dnov_991
TTGGTCCTCGTTGGTGACGGTGGTACCGGAAAGACCACTTTTGTCAAGAGACACTTGACCGGTGAGTTCGAAAAGAAGTA
CATTGCTACTTTGGGTGTCGAAGTCCATCCTTTGGGATTCCACACCAACTACGGTGAATTGAAGTTCGACGTGTGGGACA
CTGCTGGCCAAGAGAAGTTTGGTGGCTTGAGAGATGGTTACTACATTAACGGACAATGTGGTATCATCATGTTCGATGTC
ACCTCAAGAATTACCTACAAGAACGTTCCTAACTGGCACAGAGACTTGGTTAGAGTTTGTGAAAACATTCCAATTGTCTT
GTGTGGTAACAAGGTCGATGTCAAGGAACGTAAGGTCAAGGCTAGAACCATCACTTTCCACAGAAAGAAGAACTTGCAGT
ACTACGATATTTCTGCAAAGTCCAACTACAACTTCGAGAAGCCTTTCCTTTGGTTGGCCAGAAAGTTGGTTGGTAACCCA
CAGTTGGAGTTTGTTGCTTCGCCAGCTTTGGCTCCTCCAGAAGTCCAAGTCGATGCCGACTTGATGCAAAAGTACCAACA
GGAAATGGAACAGGCTACTGCTTTGCCATTGCCTGATGAAGATGAC
ORF - retro_dnov_991 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.67 % |
| Parental protein coverage: | 99.02 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQ |
| LVLVGDGGTGKTTFVKRHLTGEFEKKY.ATLGVEVHPL.FHTN.G..KF.VWDTAGQEKFGGLRDGYYI. | |
| Retrocopy | LVLVGDGGTGKTTFVKRHLTGEFEKKYIATLGVEVHPLGFHTNYGELKFDVWDTAGQEKFGGLRDGYYIN |
| Parental | AQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIPIVLCGNKVDIKDRKVKAKSIVFHRKKNLQYYDISAK |
| .QC.IIMFDVTSR.TYKNVPNWHRDLVRVCENIPIVLCGNKVD.K.RKVKA..I.FHRKKNLQYYDISAK | |
| Retrocopy | GQCGIIMFDVTSRITYKNVPNWHRDLVRVCENIPIVLCGNKVDVKERKVKARTITFHRKKNLQYYDISAK |
| Parental | SNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEVVMDPALAAQYEHDLEVAQTTALPDEDD |
| SNYNFEKPFLWLARKL.G.P.LEFVA.PALAPPEV..D..L...Y....E.A....LPDEDD | |
| Retrocopy | SNYNFEKPFLWLARKLVGNPQLEFVASPALAPPEVQVDADLMQKYQQEMEQATALPLPDEDD |
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 | 90 .43 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 48 .66 RPM |
| SRP012922_heart | 0 .00 RPM | 28 .31 RPM |
| SRP012922_kidney | 0 .00 RPM | 54 .49 RPM |
| SRP012922_liver | 0 .00 RPM | 37 .77 RPM |
| SRP012922_lung | 0 .00 RPM | 43 .68 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 52 .10 RPM |
| SRP012922_spleen | 0 .00 RPM | 88 .14 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_991 was not experimentally validated.