RetrogeneDB ID: | retro_mdom_577 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 1:375892171..375892501(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RRAS2 | ||
| Ensembl ID: | ENSMODG00000028397 | ||
| Aliases: | None | ||
| Description: | related RAS viral (r-ras) oncogene homolog 2 [Source:HGNC Symbol;Acc:17271] |
Retrocopy-Parental alignment summary:
>retro_mdom_577
TTTTTGCTGGGTTTTTTTCAGTCACTGATAGAGGAAGCTTTGAAGAAATCTATACATTTCAAAGACAGATTCTCAGAGTT
TCTAATGATTTTTGTTGGTAATAAAGCAGATCTTGACCATCAAAGACAGGTAACACAAGAAGGAGATCAACTTGCATGAC
AACTCAAAGTGACATACATGGAGGCATCTTCAAAAGTTAGAATGAATGTAGGCCAGGCTTTCTACAAACTTGTCCCAGTT
ATCAGGAAGTTTCAAAAGCAAGAATGTCCTCTTTCCCCAGAACCAGCAAGGAAAGAGAAAGACAAGAAAGGCTGACATTG
TGTCATTTTT
ORF - retro_mdom_577 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.27 % |
| Parental protein coverage: | 95.65 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | FIFYFSFEEIYKFQRQILRVKDR-DEFPMILVGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMN |
| F...F....I..........KDR..EF.MI.VGNKADLDHQRQVTQE.G.QLA.QLKVTYMEAS.K.RMN | |
| Retrocopy | FLLGFFQSLIEEALKKSIHFKDRFSEFLMIFVGNKADLDHQRQVTQE-GDQLA*QLKVTYMEASSKVRMN |
| Parental | VDQAFHELVRVIRKFQEQECPPSPEPARKEKDKKGCHCVIF |
| V.QAF..LV.VIRKFQ.QECP.SPEPARKEKDKKG.HCVIF | |
| Retrocopy | VGQAFYKLVPVIRKFQKQECPLSPEPARKEKDKKG*HCVIF |
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 .72 RPM | 0 .00 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .20 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
| SRP007412_testis | 1 .38 RPM | 0 .00 RPM |
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_577 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_577 was not experimentally validated.