RetrogeneDB ID: | retro_mdom_97 | ||
Retrocopylocation | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 2:105581231..105582392(-) | ||
| Located in intron of: | ENSMODG00000000459 | ||
Retrocopyinformation | Ensembl ID: | ENSMODG00000000466 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | PRKAR2A | ||
| Ensembl ID: | ENSMODG00000013392 | ||
| Aliases: | None | ||
| Description: | protein kinase, cAMP-dependent, regulatory, type II, alpha [Source:HGNC Symbol;Acc:9391] |
Retrocopy-Parental alignment summary:
>retro_mdom_97
ATGGAAGAGATCTCCAGCTCAGGCCACCCGCAGGACAAGAGTGAGCTGGTGGTCCCTAGGAGTCGAACGTCCAATGCAGC
CACCCTCTCTCAGACCCGCACGGCAGCCCCCAACAGGACAGCCAGCATTGGGCAGTGCCAGGGGAGGAGAGACATCTCGC
CCCTCCCTCGTGCCCAGTTGGAGACCTTAGCTTCCATCGAGGACGAACGAGAATTCATGCGCGCCTCCCAGGTCAGGGGC
AGATACCAGAGAAGGAGTTCCATTCCAGCAGAAGCCTTTGGTCCCAGTGAAGGGGAGGAGGAGCTTATGGAAGAAACCAC
GGTGGTATGGGCCATCTACCCCAAGTCAGAAGAGCAAGTCAGGAAACTGAAAGAAGCCTGTAAAGATTTACTCCCTTTCC
GAGGCTTGGAGGACGAGTTGCTTCTCCAGATCTTTAGTGCTATGTTTGAGAAGAAAGTCCTTCCCCAAGAGCATGTGGTG
GAACAGGGAGAAGACGGGGACCACTTCTATGTCATTGAAGACGGGATATTTGACGTTATAGTACAAAACAACAGTCAGCA
TAATATTATTGGCCAGTATAAGCACATGGGTGCTTTTGGAGAGCTAGCTTTGATGTACTCCTATCCTAGACCTGCTACTA
TTGTTGCCATCACAGAAGGAAGCCTTTGGGGCCTGGATCGACCAACTTTCCGGACAATCACTGTGACGTTCCAGTTGGAA
AAGAAAAAGAAGATTCAAATGCTCCTCTCCAATGTACCGTTTTTCAAATCTTTGGAGGACACAGAGTCAGTGAAAATCCT
CGATGTGGTAGAGGAGAACAACTATCAGTCTGGAGAATGCATTTTCCCAAAGGGTCAAACCTCAGACAAGTTTTACATAG
TTGAATCAGGTGAAGTCAAAATTGTGGGCGAAAAGCTTGGCAGTAAGGAGGCGGAAATTGTGAGGCATCATGAAGAAGAT
TTTTTTGGGGAATCAGCTTTGATCAGCAACAAACCTAGAACAACTTCAGCTTATGCAGTAGGCAAAGTCAAATGCATTGT
TATGGATGTGCAGGCACTGGAGAGAGTTCTTGGGCCTTATATGGACATTTTGAAGAGAGACATGTCACAGTATGAGGAGT
TAATAAAACTGCTTGGTCCCCAAATTGATACAAAAGCCTGA
ATGGAAGAGATCTCCAGCTCAGGCCACCCGCAGGACAAGAGTGAGCTGGTGGTCCCTAGGAGTCGAACGTCCAATGCAGC
CACCCTCTCTCAGACCCGCACGGCAGCCCCCAACAGGACAGCCAGCATTGGGCAGTGCCAGGGGAGGAGAGACATCTCGC
CCCTCCCTCGTGCCCAGTTGGAGACCTTAGCTTCCATCGAGGACGAACGAGAATTCATGCGCGCCTCCCAGGTCAGGGGC
AGATACCAGAGAAGGAGTTCCATTCCAGCAGAAGCCTTTGGTCCCAGTGAAGGGGAGGAGGAGCTTATGGAAGAAACCAC
GGTGGTATGGGCCATCTACCCCAAGTCAGAAGAGCAAGTCAGGAAACTGAAAGAAGCCTGTAAAGATTTACTCCCTTTCC
GAGGCTTGGAGGACGAGTTGCTTCTCCAGATCTTTAGTGCTATGTTTGAGAAGAAAGTCCTTCCCCAAGAGCATGTGGTG
GAACAGGGAGAAGACGGGGACCACTTCTATGTCATTGAAGACGGGATATTTGACGTTATAGTACAAAACAACAGTCAGCA
TAATATTATTGGCCAGTATAAGCACATGGGTGCTTTTGGAGAGCTAGCTTTGATGTACTCCTATCCTAGACCTGCTACTA
TTGTTGCCATCACAGAAGGAAGCCTTTGGGGCCTGGATCGACCAACTTTCCGGACAATCACTGTGACGTTCCAGTTGGAA
AAGAAAAAGAAGATTCAAATGCTCCTCTCCAATGTACCGTTTTTCAAATCTTTGGAGGACACAGAGTCAGTGAAAATCCT
CGATGTGGTAGAGGAGAACAACTATCAGTCTGGAGAATGCATTTTCCCAAAGGGTCAAACCTCAGACAAGTTTTACATAG
TTGAATCAGGTGAAGTCAAAATTGTGGGCGAAAAGCTTGGCAGTAAGGAGGCGGAAATTGTGAGGCATCATGAAGAAGAT
TTTTTTGGGGAATCAGCTTTGATCAGCAACAAACCTAGAACAACTTCAGCTTATGCAGTAGGCAAAGTCAAATGCATTGT
TATGGATGTGCAGGCACTGGAGAGAGTTCTTGGGCCTTATATGGACATTTTGAAGAGAGACATGTCACAGTATGAGGAGT
TAATAAAACTGCTTGGTCCCCAAATTGATACAAAAGCCTGA
ORF - retro_mdom_97 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 53.33 % |
| Parental protein coverage: | 70.54 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | EDDTEPKVIHPKSDEQRSRLQEACKDILLFKNLDQEQLSEVLDAMFERIVVSEEHVIDQGDDGDNFYVIE |
| E..T....I.PKS.EQ...L.EACKD.L.F..L..E.L.....AMFE..V...EHV..QG.DGD.FYVIE | |
| Retrocopy | EETTVVWAIYPKSEEQVRKLKEACKDLLPFRGLEDELLLQIFSAMFEKKVLPQEHVVEQGEDGDHFYVIE |
| Parental | RGKYDILVTKENQSFRVGQYDNRGSFGELALMYNTPRAATIVAITEGSLWGLDRITFRRIILKNNAKKRK |
| .G..D..V....Q....GQY...G.FGELALMY..PR.ATIVAITEGSLWGLDR.TFR.I.......K.K | |
| Retrocopy | DGIFDVIVQNNSQHNIIGQYKHMGAFGELALMYSYPRPATIVAITEGSLWGLDRPTFRTITVTFQLEKKK |
| Parental | MFESFIESVPLLKSLEVSERMKIVDVIGEKNYKDGEQIIAQGDKAESFYIVESGEVKILIKSKTNKDTED |
| ........VP..KSLE..E..KI.DV..E.NY..GE.I...G.....FYIVESGEVKI.......K..E. | |
| Retrocopy | KIQMLLSNVPFFKSLEDTESVKILDVVEENNYQSGECIFPKGQTSDKFYIVESGEVKIVGEKLGSKEAE- |
| Parental | EVEIARCQKGQYFGELALVTNKPRAASAYAVGDVKCLVMDVQAFERLLGPCMDIMKRNISNYEEQLVKMF |
| ...I.R......FGE.AL..NKPR..SAYAVG.VKC.VMDVQA.ER.LGP.MDI.KR..S.YEE.L.K.. | |
| Retrocopy | ---IVRHHEEDFFGESALISNKPRTTSAYAVGKVKCIVMDVQALERVLGPYMDILKRDMSQYEE-LIKLL |
| Parental | GSSVD |
| G...D | |
| Retrocopy | GPQID |
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_97 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_97 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 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000003255 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000013392 | 1 retrocopy |
retro_mdom_97 ,
|
| Oryctolagus cuniculus | ENSOCUG00000012426 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000006822 | 1 retrocopy |