RetrogeneDB ID: | retro_mdom_1100 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 3:108942478..108943007(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMODG00000025104 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DCAKD | ||
| Ensembl ID: | ENSMODG00000011245 | ||
| Aliases: | None | ||
| Description: | dephospho-CoA kinase domain containing [Source:HGNC Symbol;Acc:26238] |
Retrocopy-Parental alignment summary:
>retro_mdom_1100
CTAGTCTTTCTAAAACAGGATATTTCTAGTGGATCTCAGGAAAGAGTTCATGTGTTCAGGGATCAGGGCTATGCTGTAAT
TAGTGAAATGCCATTGTCTACCAGGCAGTGAAGCTAAACTATCCTGCCTATCATATTGTGCAAGTCTTTGGACAAGAGAT
CCTGCTAGAGAATGATGAGATAAATCACCAGACTTCAGGAAGCTTACTCTTTCATCAGTCTGAGAAGCATAACCTGTTGA
TTGTCATCACCCATCCAGACATCTGTAAAGAGATGTTGAAGCAGGTCCTGAAGAACTTAGTTCAAGGGTACCAATATGTG
GTCTTGGAACTCCCTTTGGTGTTTGAAACCAAAACAATGTTATGATTCATGAAGCATGCAGTGGTGGTATATTCTGAAGC
CCAGAAGCAACTGTCATGGTTAATAGAACATAATGGGATGAGTTGAGAGGAGACTGAGGCACAGATTCAGCCCTTCTGTC
CCTGGAAGAGAAGCTCCAACCAACTCAGCACATCCTGAACAACTTGGGA
ORF - retro_mdom_1100 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 62.22 % |
| Parental protein coverage: | 78.76 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | LVGLSGGIASGKSSVIQVFRDLGCAVIDA-DDIAHQVVKPGFPAYYRIVQAFGHEILLENGEINRQALGS |
| LV.L...I.SG......VFRD.G.AVI.....I..Q.VK...PAY..IVQ.FG.EILLEN.EIN.Q..GS | |
| Retrocopy | LVFLKQDISSGSQERVHVFRDQGYAVISE<NAIVYQAVKLNYPAYH-IVQVFGQEILLENDEINHQTSGS |
| Parental | IIFHQSEKRKLLNAITHPDIRKEMLKQVLKYLIQGYRYVILDIPLLFETKTMLRFMKHTVVVYCDPQTQL |
| ..FHQSEK..LL..ITHPDI.KEMLKQVLK.L.QGY.YV.L..PL.FETKTML.FMKH.VVVY...Q.QL | |
| Retrocopy | LLFHQSEKHNLLIVITHPDICKEMLKQVLKNLVQGYQYVVLELPLVFETKTML*FMKHAVVVYSEAQKQL |
| Parental | SRLMERNGLSQEEAEARI-AAQLPLEEKRQLAQHILDNSG |
| S.L.E.NG.S.EE.EA.I..A.L.LEEK.Q..QHIL.N.G | |
| Retrocopy | SWLIEHNGMS*EETEAQI<SALLSLEEKLQPTQHILNNLG |
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_1100 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1100 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 | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000032388 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000011245 | 1 retrocopy |
retro_mdom_1100 ,
|
| Mus musculus | ENSMUSG00000020935 | 1 retrocopy |