RetrogeneDB ID: | retro_mdom_1850 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 8:96301253..96301637(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSMODG00000019863 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mdom_1850
CATGGAGAACTCCCTTACACGTATTCCAGAATTACAATGGAGTCAAATCCTCAATTATATCCTGTACTGGGCATGCTGAA
GAAGTGTACTGAAGAGAATACTGATCATACCTTCAACTCATTACTCTGCAATCTTTACTGAAACACAAAGGACAGAGTTG
ACTAACACAGCAATGATGAACTATCGCTGGGAAGATGCCACATCATCATTTCCCCTCAGGTTGGAGGCCACCTACATCTT
TGAAATGAGGAAGAAGCCTTCCCCATAAGAGAAAGGGTACCAAATACATATATATGGAAAAAGTAAAGATACCCTTGGAT
CATGAGACCTTGTTGATGATGGAGGAAGAGACTATAAGCTGACTGGCAGCACTAGGTGCCAAAG
ORF - retro_mdom_1850 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.77 % |
| Parental protein coverage: | 50.81 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | YGELPYTYSRITMEPNPQWHPVLGTLKKRIEENSGHTFNSLLCNLYRNEKDSVDWHSDDEPALGRCPVIA |
| .GELPYTYSRITME.NPQ..PVLG.LKK..EEN..HTFNSLLCNLY.N.KD.VD.HS.DE..LGRC..I. | |
| Retrocopy | HGELPYTYSRITMESNPQLYPVLGMLKKCTEENTDHTFNSLLCNLY*NTKDRVD*HSNDELSLGRCHIII |
| Parental | S-LSLGATRTFEMRKKP-PPEENGD-YTYMEKVKIPLDHGTLLMMEGATQ-ADWQHRVPK |
| S.L.L.AT..FEMRKKP.P....G..Y.YMEKVKIPLDH.TLLMME..T..ADWQH.VPK | |
| Retrocopy | S>LRLEATYIFEMRKKP>PHKRKGTKYIYMEKVKIPLDHETLLMMEEETI>ADWQH*VPK |
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_1850 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1850 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Monodelphis domestica | ENSMODG00000019863 | 1 retrocopy |
retro_mdom_1850 ,
|
| Oryctolagus cuniculus | ENSOCUG00000016359 | 1 retrocopy |