RetrogeneDB ID: | retro_mdom_1574 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 6:28065798..28066173(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | REEP6 | ||
| Ensembl ID: | ENSMODG00000005050 | ||
| Aliases: | None | ||
| Description: | receptor accessory protein 6 [Source:HGNC Symbol;Acc:30078] |
Retrocopy-Parental alignment summary:
>retro_mdom_1574
TCTCTCATACTTGGCTAGGGTGCCTCCAGGTTCTACCATCTCATCAGATTTGTCTTGCCAATGAATACCTCCATCAAGGC
CATTGAAAGCCATGAAATGAAGACACTACCATCTGGCTAGCCAAGTGGATAGTTTATGGCATATTTGACCTGGCTGAATT
TTTCTCGGACATCTTCCTTTTCTGGTTGCACTTTTACTATGCAGTGAAGTTTGCCTTCTTGCTTTGGGACATGCTTCCAA
TGACCTGTAATGGTTTCCAGTTTCCTATATAATCACCTAATCTACTCCATCTTCCTGAGGAAATAGGCTTCTGTGGGCAG
CCACCTGATGATGGGAGGATGAGTCCTGGACACAGCAGCCAGTATTACTTGGGAG
ORF - retro_mdom_1574 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 61.72 % |
| Parental protein coverage: | 57.8 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | SIYIWYGASLLCNLIGFIYPAYASIKAIES-PDREDDTIWLTYWVVYGMFGLAEFFSDIFLFWFPFYYAG |
| S.....GAS....LI.F..P...SIKAIES.P..ED.TIWL..W.VYG.F.LAEFFSDIFLFW..FYYA. | |
| Retrocopy | SLILG*GASRFYHLIRFVLPMNTSIKAIES<P*NEDTTIWLAKWIVYGIFDLAEFFSDIFLFWLHFYYAV |
| Parental | KCAFLLWCMLPLACNG-SQFLYNRLIRPIFLRHQASMDSLVTDLSGRALDTAASITRE |
| K.AFLLW.MLP..CNG.S.FLYN.LI..IFLR..AS..S......G..LDTAASIT.E | |
| Retrocopy | KFAFLLWDMLPMTCNG>SSFLYNHLIYSIFLRK*ASVGSHLM-MGG*VLDTAASITWE |
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_1574 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1574 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 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Microcebus murinus | ENSMICG00000003588 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000005050 | 1 retrocopy |
retro_mdom_1574 ,
|
| Sarcophilus harrisii | ENSSHAG00000012645 | 1 retrocopy | |
| Drosophila melanogaster | FBgn0033906 | 1 retrocopy |