RetrogeneDB ID: | retro_mdom_1469 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 5:193806061..193806763(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ZC3HAV1L | ||
| Ensembl ID: | ENSMODG00000024430 | ||
| Aliases: | None | ||
| Description: | zinc finger CCCH-type, antiviral 1-like [Source:HGNC Symbol;Acc:22423] |
Retrocopy-Parental alignment summary:
>retro_mdom_1469
ATGGCGGATCCAGAGGTCTGCTGCTTCCTCACCAAGCTCTTGTGCAAGAACAAGTCGGGGTCCTCGGATGTCCAGGGTTT
GAGCCAGAAGATCGGCTGGTCGGAGGCGCAGCTAAGCCAGATCCTGCAGGAGGCCAGGCCCGAGCGCTTCCTGCTGGTGG
AGGACGAGGACCCCTCCGTGGCCATGGCGGTGGCTGTGAGTCCCTTGCGCCTCTGCGGCTACTACCTGAGGGACGAGTGT
GACAGCTGTGAGAGGCTACACCTTTGTAAACTGTTCGTGCAGGATAGGTGCAGGTATAAAAAGCAGGGGTACAAATGCAG
ATTTTCCCATGATATTCATTTGCCTGGGAATAGCAAAATCCTGAAAAATAATGCACTTTTTGCTATCAATGAATCAGAGC
TTAAAGTCCTGCTTTATCAGAATGATCCTTCCCTTTTGCCTGAGGTCTGTCCCTTCTATAGCAGAGGTGAAGGGCCTCAT
GGATCCTGCAACCTCCAGGATAACTGCACGAAGCTCCATGTTTGTAAGCATTTCATTTGGAGAGAATGTCGGTTTCAAAA
GTGCAAGCGATCTCATGATCTACATACTGAAAATGCGATGAAATTACTGAGGGATCAAGGATTGAATGCCTCCACCATCT
TGAACATTCAGAGAATCTGCAAGTTTAAGCATGGAGAGATCTGCAAGTCCTTTGACAAGAAG
ORF - retro_mdom_1469 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 95.73 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MADPGVCCFLTKLLCENKSGSSDVQRLSQKIGWSEAQLSQILQEAGPERFLLVEDEDPSVAVAVAVSPLR |
| MADP.VCCFLTKLLC.NKSGSSDVQ.LSQKIGWSEAQLSQILQEA.PERFLLVEDEDPSVA.AVAVSPLR | |
| Retrocopy | MADPEVCCFLTKLLCKNKSGSSDVQGLSQKIGWSEAQLSQILQEARPERFLLVEDEDPSVAMAVAVSPLR |
| Parental | LCGYYLRDECDGCERLHLCKLFVQDRCRYKKQGYKCRFSHDIHLPGNSKILKNNALFGINESELKVLLFQ |
| LCGYYLRDECD.CERLHLCKLFVQDRCRYKKQGYKCRFSHDIHLPGNSKILKNNALF.INESELKVLL.Q | |
| Retrocopy | LCGYYLRDECDSCERLHLCKLFVQDRCRYKKQGYKCRFSHDIHLPGNSKILKNNALFAINESELKVLLYQ |
| Parental | NDPSLLPEVCPFYNRGEGPHGSCNLQDNCTKLHVCKHFIWGECRFQKCKRSHDLHTENAMKLLRDQGLNA |
| NDPSLLPEVCPFY.RGEGPHGSCNLQDNCTKLHVCKHFIW.ECRFQKCKRSHDLHTENAMKLLRDQGLNA | |
| Retrocopy | NDPSLLPEVCPFYSRGEGPHGSCNLQDNCTKLHVCKHFIWRECRFQKCKRSHDLHTENAMKLLRDQGLNA |
| Parental | STILNIQRICKFKHGEICKSFDKK |
| STILNIQRICKFKHGEICKSFDKK | |
| Retrocopy | STILNIQRICKFKHGEICKSFDKK |
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_1469 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1469 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 | ENSMODG00000024430 | 1 retrocopy |
retro_mdom_1469 ,
|
| Rattus norvegicus | ENSRNOG00000013944 | 1 retrocopy |