RetrogeneDB ID: | retro_mdom_41 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | X:23023486..23024173(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMODG00000006985 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSMODG00000002508 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mdom_41
ACCAAGGGGACTCTAGTAGATCATTCCTACGTAGACACCCATATGCTCCTTCACCCAGAGCTGCTCTCTCGGGAGTTCCT
GCTGCTCACACTGCAGGAAAAAAATATAATTGGTAAAGAGGAAATAAAGACCAGCAAAAATGACCTTATTGCTCTCTATA
ACCGCCATGCATTGCCATTGCCTCAAAGGCAATTACCAAAAAGTAGATGGGGCAAAGTAGTTGAAGAGAAAAGAGAAGTG
AAAAATGAATTGAAAAATGAGCAAAAAAGTGATGTGAGTGTGGCAGCTTCAAGGAAAAGACCCCGCATAGTCTTTGATGG
CAATTCCACAAGTACGAGGATAAAAGTAAGAAGGACAGAAAAGGCAGCTAATGATGGCTCACAACCTCCTCCATCAGCTG
GCTTTACTAACAGTACCATTATCAAGTTACCAAATTCAAAAGCTTCCTCTGTACCTTCCACTTTGCCTACAGGCCTTAAA
GTGAACCCCCCAAATGACACTAAACAGAGCCCTGTGTTAATGGATAGTAGTACAGTGGCCAATGTAAAATCACAACCTTT
GTCTCATGTTGAGGAAACTTCTGTTGTGAAATTAAAGAGAATTGTTCCAAGAGAAGACGCAAAGTCAGTGAACGAATTCA
AGTCCTCAGGAACAAAGAAAAAGATCCAACGTATTACATGGCCATGA
ORF - retro_mdom_41 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 63.01 % |
| Parental protein coverage: | 94.78 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | SEMLLHPELLSQEFLLLTLEQKNIVVEEEIKINKDDLTDFYVQHAIPLPQRELPKSRWGKMMEKKRG-QN |
| ..MLLHPELLS.EFLLLTL..KNI...EEIK..K.DL...Y..HA.PLPQR.LPKSRWGK..E.KR...N | |
| Retrocopy | THMLLHPELLSREFLLLTLQEKNIIGKEEIKTSKNDLIALYNRHALPLPQRQLPKSRWGKVVEEKREVKN |
| Parental | ELKNEHKRNMSVESLRKRPLIVFDGNSTSTSIKVRKTENGTNDRLKPPPSVGVTNNTFRKLPHSNTSSLI |
| ELKNE.K...SV...RKRP.IVFDGNSTST.IKVR.TE...ND...PPPS.G.TN.T..KLP.S..SS.. | |
| Retrocopy | ELKNEQKSDVSVAASRKRPRIVFDGNSTSTRIKVRRTEKAANDGSQPPPSAGFTNSTIIKLPNSKASS-- |
| Parental | LPSTLPTDIKVESNNDTKQNHVLMTSRSTLANVKSPPLSPVGGTTVVKLKRTAPKEEAESVSDCKPTEAK |
| .PSTLPT..KV...NDTKQ..VLM.S.ST.ANVKS.PLS.V..T.VVKLKR..P.E.A.SV...K....K | |
| Retrocopy | VPSTLPTGLKVNPPNDTKQSPVLMDS-STVANVKSQPLSHVEETSVVKLKRIVPREDAKSVNEFKSSGTK |
| Parental | RKIQHVTWP |
| .KIQ..TWP | |
| Retrocopy | KKIQRITWP |
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_41 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_41 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 1 parental gene, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Monodelphis domestica | ENSMODG00000002508 | 3 retrocopies |
retro_mdom_1092, retro_mdom_1870, retro_mdom_41 ,
|