RetrogeneDB ID: | retro_dnov_117 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_1778:17837..18207(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | YWHAZ | ||
| Ensembl ID: | ENSDNOG00000001672 | ||
| Aliases: | None | ||
| Description: | tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide [Source:HGNC Symbol;Acc:12855] |
Retrocopy-Parental alignment summary:
>retro_dnov_117
GAGAGCAACGTCTTCCATTTGAAAATGAAAGGAGACTGCTATGGTTACTTAGCCGAGGATGCTGCTGGTGAAGACAAGAA
AGGGATTGTGGCTCAGGCACAACAATCACACCAAGAATAATTGAAATGAGCAGAAAGGAAATGCAACCAACATATCCTAT
CAGATTGGGTTTGGCTCTTAACTTTTCTGTGTCCTCTTATGAGATTCTGAACTCCCTAGAGAAGGCCTGCTCTCTTGCAA
AGACAGCTTTTGATGAAGCCCTTGCTGAACTTGACACATTAGTGAAGAGTCATGCAAAGAGAGCATGCTCTTAAGGTAAT
TACTGAGAGACAAGTTGACATCGTGGATGTCAGATGCCCAAGGAGATGAA
ORF - retro_dnov_117 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.4 % |
| Parental protein coverage: | 89.86 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | ESKVFYLKMKGDYYRYLAEVAAGDDKKGIVDQSQQAYQE-AFEISKKEMQPTHPIRLGLALNFSVFYYEI |
| ES.VF.LKMKGD.Y.YLAE.AAG.DKKGIV.Q.QQ..QE...E.S.KEMQPT.PIRLGLALNFSV..YEI | |
| Retrocopy | ESNVFHLKMKGDCYGYLAEDAAGEDKKGIVAQAQQSHQE<IIEMSRKEMQPTYPIRLGLALNFSVSSYEI |
| Parental | LNSPEKACSLAKTAFDEAIAELDTL-SEESYKDSTLIMQLLRDNLTLWTSDTQGDE |
| LNS.EKACSLAKTAFDEA.AELDTL.SEES.K.S.L...LLRD.LT.W.SD.QGDE | |
| Retrocopy | LNSLEKACSLAKTAFDEALAELDTL<SEESCKESMLLR*LLRDKLTSWMSDAQGDE |
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 | 6 .61 RPM | 62 .04 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 53 .48 RPM |
| SRP012922_heart | 0 .46 RPM | 3 .94 RPM |
| SRP012922_kidney | 0 .00 RPM | 11 .50 RPM |
| SRP012922_liver | 0 .46 RPM | 8 .82 RPM |
| SRP012922_lung | 8 .86 RPM | 30 .39 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 3 .46 RPM |
| SRP012922_spleen | 39 .83 RPM | 44 .53 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_117 was not experimentally validated.