RetrogeneDB ID: | retro_mdom_650 | ||
Retrocopylocation | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 1:693116131..693116354(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | PHPT1 | ||
| Ensembl ID: | ENSMODG00000017338 | ||
| Aliases: | None | ||
| Description: | phosphohistidine phosphatase 1 [Source:HGNC Symbol;Acc:30033] |
Retrocopy-Parental alignment summary:
>retro_mdom_650
CTGACTCCAAAGGACACCCTAAGCATCGAGATCATGTATGGCTCTAAGTGAGCTGAGAAACATTCAGATCTCTATTGACA
AAATATCAGAAGAAATGCAAAAGCAGGGTTTTGACTATAAGAGTCTGAGAGGTGGTAAGATTGCCCATGAAAACCATGAC
AAGAAGATCCACATGAATAGACAATCCCAGAATTTCAGATATGCCCAGGATTCTGTGTCAACT
CTGACTCCAAAGGACACCCTAAGCATCGAGATCATGTATGGCTCTAAGTGAGCTGAGAAACATTCAGATCTCTATTGACA
AAATATCAGAAGAAATGCAAAAGCAGGGTTTTGACTATAAGAGTCTGAGAGGTGGTAAGATTGCCCATGAAAACCATGAC
AAGAAGATCCACATGAATAGACAATCCCAGAATTTCAGATATGCCCAGGATTCTGTGTCAACT
ORF - retro_mdom_650 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 52. % |
| Parental protein coverage: | 58.27 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LDGQDCPSKEIVRGYKWAEYHSDIY-DKVSGEIQKKGFDCECLGGGRISHQSQDKKIHVYGYSMGFGRAQ |
| L...D..S.EI..G.K.AE.HSD.Y.DK.S.E.QK.GFD...L.GG.I.H...DKKIH....S..F..AQ | |
| Retrocopy | LTPKDTLSIEIMYGSK*AEKHSDLY>DKISEEMQKQGFDYKSLRGGKIAHENHDKKIHMNRQSQNFRYAQ |
| Parental | HSIST |
| .S.ST | |
| Retrocopy | DSVST |
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 | 51 .25 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 51 .91 RPM |
| SRP007412_heart | 0 .00 RPM | 103 .06 RPM |
| SRP007412_kidney | 0 .00 RPM | 48 .72 RPM |
| SRP007412_liver | 0 .00 RPM | 48 .84 RPM |
| SRP007412_testis | 0 .00 RPM | 55 .39 RPM |
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_650 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_650 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 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Monodelphis domestica | ENSMODG00000017338 | 1 retrocopy |
retro_mdom_650 ,
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