RetrogeneDB ID: | retro_mdom_839 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 2:168266823..168267225(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | UBE2Z | ||
| Ensembl ID: | ENSMODG00000012285 | ||
| Aliases: | None | ||
| Description: | ubiquitin-conjugating enzyme E2Z [Source:HGNC Symbol;Acc:25847] |
Retrocopy-Parental alignment summary:
>retro_mdom_839
CAGAGTGTCAGCTCTGTGTCTATCTCCTTCCAGTCCCAAATGGCTGAAAACCCCTACCCCAATGAGCCTGGCTTGGAGCA
GGAGAGGCTCTTAGGAGACAGCAAAACCTACAATGAATATAGCTTGCATGAGACCATCAGAGTGGCAGTTTGTGATAGCA
GGGAGGGGAAATGACTCTGCCCCAAATTCCTAAGGGATGTGATAGAGAAGTCCTTTATGGGGTATTATTAACTCTATGAG
TTGGTGTGCAAAGACAGCCTATACCTCCAGAGTCAGACAATGCAGGGAGGACCCTTTTGGGGAGAAGAGAGGACACAATG
ACTCCCTCCTGAATCACTTGGGGCAATTCACCTGAAGTTGCAGGAGAAAAACTAACAGGACAGTGTTGAAATAGACTCTA
AT
ORF - retro_mdom_839 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 68.84 % |
| Parental protein coverage: | 54.22 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | QSISSVLISIQSLMTENPYHNEPGFEQERHPGDSKNYNECIRHETIRVAVCDMLEGKCPCPEPLRGVMEK |
| QS.SSV.IS.QS.M.ENPY.NEPG.EQER..GDSK.YNE...HETIRVAVCD..EGK..CP..LR.V.EK | |
| Retrocopy | QSVSSVSISFQSQMAENPYPNEPGLEQERLLGDSKTYNEYSLHETIRVAVCDSREGK*LCPKFLRDVIEK |
| Parental | SFMEYYDFYEVVCKDRLHLQGQTMQ-DPF-GEKRGHFDYQSLLTR-LGAIRLKVQEKHQQDSAEIDSD |
| SFM.YY..YE.VCKD.L.LQ.QTMQ..PF.GEKRGH.D..SLL...LGAI.LK.QEK..QDS.EIDS. | |
| Retrocopy | SFMGYY*LYELVCKDSLYLQSQTMQGGPF>GEKRGHND--SLLNH<LGAIHLKLQEKN*QDSVEIDSN |
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_839 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_839 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000013754 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000012285 | 1 retrocopy |
retro_mdom_839 ,
|
| Mustela putorius furo | ENSMPUG00000015342 | 1 retrocopy |