RetrogeneDB ID: | retro_mdom_421 | ||
Retrocopylocation | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 1:479849095..479849298(+) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSMODG00000007240 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mdom_421
GTCTCTGATCATCCTACTATTCCACATCCCCACCCACCAAAAAAATCCCCATTGTCAGTTACTGAGAGCCACCAAATCTG
ACATTTACATTTGGTCTCAGACTTTAAGTTCCTCTCCTATTTCTTTTTTAAACAGTTTTTGAAGTTCTTAAAGGCAAGAG
TAAATTTGTGCATATTTTACTGGTTCCAGCTTTTAGGTTCTTT
GTCTCTGATCATCCTACTATTCCACATCCCCACCCACCAAAAAAATCCCCATTGTCAGTTACTGAGAGCCACCAAATCTG
ACATTTACATTTGGTCTCAGACTTTAAGTTCCTCTCCTATTTCTTTTTTAAACAGTTTTTGAAGTTCTTAAAGGCAAGAG
TAAATTTGTGCATATTTTACTGGTTCCAGCTTTTAGGTTCTTT
ORF - retro_mdom_421 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 52.7 % |
| Parental protein coverage: | 100. % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MSDHPTSPHTPQTPHCHSLRTTKSD----FYIWSRFKFLPCLFFFFFLKQFSK-VLKGKSEFLWILLVPA |
| .SDHPT.PH.P..P....L..T.S.........S.FKFL......FF.KQF.K.VLKGKS.F..ILLVPA | |
| Retrocopy | VSDHPTIPH-PHPPKKSPLSVTESHQI*HLHLVSDFKFLS----YFFFKQFLK<VLKGKSKFVHILLVPA |
| Parental | LRFF |
| .RFF | |
| Retrocopy | FRFF |
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 |
|---|---|---|
| SRP007412_brain | 0 .00 RPM | 0 .00 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
| SRP007412_testis | 0 .00 RPM | 0 .00 RPM |
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_421 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_421 was not experimentally validated.
Retrocopy orthology:
Monodelphis domestica does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Monodelphis domestica | ENSMODG00000007240 | 2 retrocopies |
retro_mdom_421 , retro_mdom_940,
|