RetrogeneDB ID: | retro_mdom_295 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 7:37281708..37282131(-) | ||
| Located in intron of: | ENSMODG00000017505 | ||
Retrocopy information | Ensembl ID: | ENSMODG00000025344 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSMODG00000009520 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mdom_295
GTTTGCTGCGCCAAGCTCGCCTGCTCCCCAGCTCTGATTCGTGCTGGATCCAGAATTGTATATAGACCAATTTCTGCAGC
AGTGTTGTCTCTACCAGAGGCCAGGACTGGAGAGGACAACACAGTATCTAATGGGCCCCAGAACAGAGTGTCTCAGCTAG
CACTAAGGGAGTCCCAGACCAGTGCTATCAGCAGGGACGTTGATACTGCTGCCAAATTTATTGGTGCAGGTGCTGCCACA
GTAGGAGTGGCTGATTCTGGTGCTGGTATTGGAACTATCTTTGGTTCTCTCATTATTGGTTATGCCAGAAACCCATCACT
GAAGCAGCAGCTGTTCTCATATGCTCTCCTGGGATTCGCCTTGTCTGAAGCTATGGGTCTCTTTTGTTTGATGGTTGCTT
TCCTGATCTTGTTTGCCATGTAA
ORF - retro_mdom_295 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 93.48 % |
| Parental protein coverage: | 97.87 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | CAKLACSPALIRAGSRIVYRPISAAVLSRPEVRTGEGNTVSNGAQNRVSQLALREFQTSAISRDVDTAAK |
| CAKLACSPALIRAGSRIVYRPISAAVLS.PE.RTGE.NTVSNG.QNRVSQLALRE.QTSAISRDVDTAAK | |
| Retrocopy | CAKLACSPALIRAGSRIVYRPISAAVLSLPEARTGEDNTVSNGPQNRVSQLALRESQTSAISRDVDTAAK |
| Parental | FIGAGAATVGVAGSGAGIGTVFGSLIIGYARNPSLKQQLFSYAILGFALSEAMGLFCLMVAFLILFAL |
| FIGAGAATVGVA.SGAGIGT.FGSLIIGYARNPSLKQQLFSYA.LGFALSEAMGLFCLMVAFLILFA. | |
| Retrocopy | FIGAGAATVGVADSGAGIGTIFGSLIIGYARNPSLKQQLFSYALLGFALSEAMGLFCLMVAFLILFAM |
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_295 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_295 was not experimentally validated.