RetrogeneDB ID: | retro_dnov_74 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_1283:318916..319184(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NIP7 | ||
| Ensembl ID: | ENSDNOG00000006821 | ||
| Aliases: | None | ||
| Description: | NIP7, nucleolar pre-rRNA processing protein [Source:HGNC Symbol;Acc:24328] |
Retrocopy-Parental alignment summary:
>retro_dnov_74
GTATCACTGGGGATCTGCTTTGAAAAGTTCACTAAGACCCACACGTTCTGGTTGCACATCACTGCTCTGGCTTATCTTGC
ACCCTATGCCAAGTATAAAGTATGGGTAAAGCCTGGAGCAGAACAGTCTTTCCTGTGTGGGAACCATGTGTTGAAACCTG
GCCTGGGTCCAGTTAATGAAGATAGTTCTCAGTACTGGGGAGGGGTGGTATACTCCCTGGCAGACATCTCTGGGTTTTGG
GGTGGCAGGAAAGTAGAATGGTGATTGT
ORF - retro_dnov_74 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.82 % |
| Parental protein coverage: | 50.85 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | VSLGTCFGKFTKTHKFRLHITALDYLAPYAKYKVWVKPGAEQSFLYGNHVLKSGLGRITENTSQYQGVVV |
| VSLG.CF.KFTKTH.F.LHITAL.YLAPYAKYKVWVKPGAEQSFL.GNHVLK.GLG...E..SQY.G.VV | |
| Retrocopy | VSLGICFEKFTKTHTFWLHITALAYLAPYAKYKVWVKPGAEQSFLCGNHVLKPGLGPVNEDSSQYWGGVV |
| Parental | YSMADIPLGF-GVAAKSTQDC |
| YS.ADI..GF.GVA.K...DC | |
| Retrocopy | YSLADIS-GF>GVAGK*NGDC |
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 | 5 .25 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 2 .61 RPM |
| SRP012922_heart | 0 .00 RPM | 1 .16 RPM |
| SRP012922_kidney | 0 .00 RPM | 3 .01 RPM |
| SRP012922_liver | 0 .00 RPM | 2 .94 RPM |
| SRP012922_lung | 0 .00 RPM | 3 .67 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 1 .21 RPM |
| SRP012922_spleen | 0 .00 RPM | 4 .58 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_74 was not experimentally validated.