RetrogeneDB ID: | retro_mdom_902 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 2:367396890..367397220(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ATPIF1 | ||
| Ensembl ID: | ENSMODG00000010826 | ||
| Aliases: | None | ||
| Description: | ATPase inhibitory factor 1 [Source:HGNC Symbol;Acc:871] |
Retrocopy-Parental alignment summary:
>retro_mdom_902
ATATGCTGTACTGTGGCGACAGCAGCTCGACTTGGGCTTGGGCTCTGGGGCTGGAGGACCATGCAGGCCCAGAGCTATAA
CTTGGACTCCAGCCAGTTTAGCACTTTTGGAGGTAAAGGCGGTGGCTCCATCTGAGACACAGGCGGGGCCTTAGGCAGAA
GTGAGAAGGCCGAGGAGGAGCAGTACTTCTTAGAGAAGAACAAAGAGCAACTGGCTGCCCTTAGGAAATACCATCAAGAA
GAAATTAGCCACCACAAGAAGGAGATACAGCATCTGCAGAAAGAAATCAAGAGTCATAAGGGCAAGATTAAACATCTTAA
GCATGATGAT
ORF - retro_mdom_902 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 83.64 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MACTVATAARLGLGLWGARTMQARSYNLDSRQFSTLGGEGGGSIRDAGGAFSRREKAEEERYFREKNKEQ |
| ..CTVATAARLGLGLWG.RTMQA.SYNLDS.QFST.GG.GGGSI.D.GGA..R.EKAEEE.YF.EKNKEQ | |
| Retrocopy | ICCTVATAARLGLGLWGWRTMQAQSYNLDSSQFSTFGGKGGGSI*DTGGALGRSEKAEEEQYFLEKNKEQ |
| Parental | LAALRKYHQEEISHHEKEIQRLQKEIERHKGKIKHLKHDD |
| LAALRKYHQEEISHH.KEIQ.LQKEI..HKGKIKHLKHDD | |
| Retrocopy | LAALRKYHQEEISHHKKEIQHLQKEIKSHKGKIKHLKHDD |
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_902 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_902 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 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Myotis lucifugus | ENSMLUG00000000170 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000010826 | 1 retrocopy |
retro_mdom_902 ,
|
| Otolemur garnettii | ENSOGAG00000010337 | 2 retrocopies | |
| Rattus norvegicus | ENSRNOG00000013300 | 1 retrocopy |