RetrogeneDB ID: | retro_dnov_1698 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_26890:17902..18166(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDNOG00000006706 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PPP1R2 | ||
| Ensembl ID: | ENSDNOG00000023619 | ||
| Aliases: | None | ||
| Description: | protein phosphatase 1, regulatory (inhibitor) subunit 2 [Source:HGNC Symbol;Acc:9288] |
Retrocopy-Parental alignment summary:
>retro_dnov_1698
AAAAAATCCCAAAAGTGGGACGAATCGAACATCCTGGCGACGTACCGCCCGGCATATAAAGACTATGGTTTGATGAAGAT
AAATGAGCCGAATAGTCCTTACCTTGCTATGCTAGACGATGGTGAAGATCCAGTGAATGATTCAGAGGCAAGGGAAGCCA
TGACCCCGGACATGTTAGCGAAGAAACGAGCCGCCAGTGAAACCTCGGACCGCAAGCCTCAGGTGGAGGAACAAGCGACC
CCTGAGGAGGAGGACCTTAACATC
ORF - retro_dnov_1698 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 60.23 % |
| Parental protein coverage: | 53.66 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | KKSQKWDEMNILATYHPADKDYGLMKIDEPSTPYHSMIGDDENALSDSETTEAMTPDLLAKKLAAAEGSE |
| KKSQKWDE.NILATY.PA.KDYGLMKI.EP..PY..M..D.E....DSE..EAMTPD.LAKK.AA.E.S. | |
| Retrocopy | KKSQKWDESNILATYRPAYKDYGLMKINEPNSPYLAMLDDGEDPVNDSEAREAMTPDMLAKKRAASETSD |
| Parental | PKYRIQEQDSSGDEDSDL |
| .K....EQ.....ED... | |
| Retrocopy | RKPQVEEQATPEEEDLNI |
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 | 7 .20 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 12 .23 RPM |
| SRP012922_heart | 0 .00 RPM | 6 .50 RPM |
| SRP012922_kidney | 0 .00 RPM | 6 .84 RPM |
| SRP012922_liver | 0 .00 RPM | 1 .70 RPM |
| SRP012922_lung | 0 .00 RPM | 9 .01 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 15 .06 RPM |
| SRP012922_spleen | 0 .00 RPM | 10 .42 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_1698 was not experimentally validated.