RetrogeneDB ID: | retro_dnov_968 | ||
Retrocopylocation | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_12809:20420..20744(+) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | RWDD4 | ||
| Ensembl ID: | ENSDNOG00000015132 | ||
| Aliases: | None | ||
| Description: | RWD domain containing 4 [Source:HGNC Symbol;Acc:23750] |
Retrocopy-Parental alignment summary:
>retro_dnov_968
GAACTGGAAGAACTGTCTATTTATGACGGAGAAGGACATTTCCGGGAATTAAGTCCAGTTTCATTTCAATATAGGATAGG
TGAAAATGGTGATCCCAAAGCCTTCTTAACTGTGATTTCCCAGACAGAAACATATCCCAAACACCTCTAATTATACCTAT
GGACGCTTTTTTAAAACAACACCATATCATCAGCTATAAAGCAGGGTATATTAGCCAAGTTACAGGGAGCAGTTAATCTT
GGAACTGCTATGACCTATAACATTGCTTGATTGTGCCAAGGACAAGACCAGTTCATGGAGAATCACCATCTCATTAATTC
TACA
GAACTGGAAGAACTGTCTATTTATGACGGAGAAGGACATTTCCGGGAATTAAGTCCAGTTTCATTTCAATATAGGATAGG
TGAAAATGGTGATCCCAAAGCCTTCTTAACTGTGATTTCCCAGACAGAAACATATCCCAAACACCTCTAATTATACCTAT
GGACGCTTTTTTAAAACAACACCATATCATCAGCTATAAAGCAGGGTATATTAGCCAAGTTACAGGGAGCAGTTAATCTT
GGAACTGCTATGACCTATAACATTGCTTGATTGTGCCAAGGACAAGACCAGTTCATGGAGAATCACCATCTCATTAATTC
TACA
ORF - retro_dnov_968 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 71.93 % |
| Parental protein coverage: | 62.22 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | ELEALRSIYEGDESFRELSPVSFQYRIGENGDPKAFLIEISWTETYP-QTPPIISMNAFF-NNTISSAVK |
| ELE.L.SIY.G...FRELSPVSFQYRIGENGDPKAFL..IS.TETYP.QTP.II.M.AF..NNTISSA.K | |
| Retrocopy | ELEEL-SIYDGEGHFRELSPVSFQYRIGENGDPKAFLTVISQTETYP<QTPLIIPMDAFL>NNTISSAIK |
| Parental | QSILAKLQEAVEVNLGTAMTYTLFEYAKDNKEQFMENHHPINST |
| Q.ILAKLQ.AV..NLGTAMTY...........QFMENHH.INST | |
| Retrocopy | QGILAKLQGAV--NLGTAMTYNIA*LCQ-GQDQFMENHHLINST |
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 | 20 .81 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 9 .07 RPM |
| SRP012922_heart | 0 .00 RPM | 12 .30 RPM |
| SRP012922_kidney | 0 .00 RPM | 14 .51 RPM |
| SRP012922_liver | 0 .00 RPM | 9 .60 RPM |
| SRP012922_lung | 0 .00 RPM | 21 .53 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 29 .60 RPM |
| SRP012922_spleen | 0 .00 RPM | 22 .89 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_968 was not experimentally validated.