RetrogeneDB ID: | retro_mdom_73 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 6:253302923..253303628(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMODG00000024164 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSMODG00000005254 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mdom_73
ATGGTAAACTACTATGAGGTGCTCGGCGTTCAGTCGAGCGCCTCTCAGGAGGACATAAAGAAGGCCTACCGTAAGCTTGC
CCTACGCTGGCACCCAGACAAGAACCCAGACAATAAGGACGAAGCAGAAAAAAAATTCAAGCAGGTGTCCGAGGCCTATG
AGGTTCTCTCCGACTCCAAGAAGAGGTCAATGTATGACAGGTCAGGGTCAGAAGGCTGGAGGGGTGGCACCGGCGGGGCA
GGTCCCACGTATAACAGCCCCTTCAGCTCTGGCTATACCTTCCGTAATCCCGAAGACATCTTTAAGGAGTTTTTTGGTGG
TATGGATCCATTCTCTTTTGACTTCTGGGACAACCCTTTCAGCAGTGACCGGGATCGAGACAGCGGCAGAGGCCGGGGTT
TGCGCGGAGCCTTTTCTGCTGGCTTCGGTGAATTCCCCGCTTTCATGGAGGCCTTCTCCTCCTTTGACTCTCTAGGCCAT
GGAGGCAGGGCCACCTTTTCCTCCACGTCCTTTGGGGGTTCAGGTTCAGGTAGCTCTGGCTACAAGTCGGTGATGTCGTC
CACGGAGATGGTCAATGGGCGGAAGGTCACCACCAAGCGGATTGTGGAGAATGGACAGGAACGAGTAGAGGTTGAGGAGG
ACGGGCAGCTGAAGTCAGTGATCATCAATGGGAAGGAACAGCTCAAATGGGTGGACAACAAGTGA
ORF - retro_mdom_73 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 59.75 % |
| Parental protein coverage: | 71.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MVDYYEVLGVQRHASPEDIKKAYRKLALKWHPDKNPENKEEAERRFKQVAEAYEVLSDAKKRDMYDKYGK |
| MV.YYEVLGVQ..AS.EDIKKAYRKLAL.WHPDKNP.NK.EAE..FKQV.EAYEVLSD.KKR.MYD..G. | |
| Retrocopy | MVNYYEVLGVQSSASQEDIKKAYRKLALRWHPDKNPDNKDEAEKKFKQVSEAYEVLSDSKKRSMYDRSGS |
| Parental | EGLNGGGGGGGGGSHFENPFEYGFTFRNPDDVFREFFGGRDPFSFDFFDPFEDFFGNRRGTRGNRSRG-A |
| EG....GG.GG.G.....PF..G.TFRNP.D.F.EFFGG.DPFSFDF.D.....F...R.....R.RG.. | |
| Retrocopy | EGWR--GGTGGAGPTYNSPFSSGYTFRNPEDIFKEFFGGMDPFSFDFWD---NPFSSDRDRDSGRGRGLR |
| Parental | GPFFSAFGGFPGFGSGLSSFDTGFTSFGSVGHGGLSSFSSTSFGGSGMGNFKSISTTTKIVNGRKITTKR |
| G.F...FG.FP.F....SSFD....S.G..G....SS.S....G....G.....S.T...VNGRK.TTKR | |
| Retrocopy | GAFSAGFGEFPAFMEAFSSFD----SLGHGGRATFSSTSFGGSGSGSSGYKSVMSST-EMVNGRKVTTKR |
| Parental | TFENGQERVEVEEDGQLKSLTINGVE |
| ..ENGQERVEVEEDGQLKS..ING.E | |
| Retrocopy | IVENGQERVEVEEDGQLKSVIINGKE |
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_73 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_73 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 | ENSMODG00000005254 | 1 retrocopy |
retro_mdom_73 ,
|
| Ornithorhynchus anatinus | ENSOANG00000006132 | 1 retrocopy |