RetrogeneDB ID: | retro_mdom_168 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 6:80832189..80832972(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMODG00000024956 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSMODG00000008872 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mdom_168
ATGCATTGTGGGAGCAAGGTGAAGAGCGAATACATGAAGCGCTACAAAGTCCCCAAGTGGGACACTTGTGGCCCGTACTA
CCAGGAGCTATTGCATTATCGCCTGAGTCGGCGGCTACTGGAGCAGACGCACAACCCCTGGTTATGGGACGGCTGGGGGT
CTTCCAGCAACTCGGACGATTCCTCATCTTCTGGAGGTGGTGGGGCCTCCACGCCCCTGTGTCCCCAGGGAGCTTCGGCC
CCTTCTCCACCCCAGACTCCCCTCAAGTCCAAAAGAGAGGAAGAGGAACTAGGAGTGGAAGAGAAAGGGGCCGAGGCATC
TGAGGATGAGGACGCTGCCAGCCTCCCAGAAACACCAGGGAAAGACACACAAGAAAAAAATAAACAGCAAATGAAAGTGA
AAAAACAACAGATAGCAGTGAAAGACAAACTAATGGATAACACAGATCATCCTCCACAACGTGCTTTGCTTTCTGGAGCT
AATAAGAAAACAGCTAAAAGTCCTCAAAGACCAAGTAAAACAAAAGAAGTCAAACATCCATTTGCTCTTTATGGCTGGGG
GGAAAAACAGACAGATACTGGGAGCCAGAAAACACATAATGTATGTGCTTCTGCTTCAGAACAACAGTTTCATGAGACAG
CATTACGAGCCAAGAACAGAAGACAAGTGGAAAAAAGAAAACTGGTCAGTCAGAGACAAAGAGAGGTGCAGAAACACAGA
AGGAACAAGCCTTCCTCTTCATGGATGACAGAGTACATGAGATGCTACTCAGCAAGAGCTTGA
ORF - retro_mdom_168 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 88.76 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MHCGSKVKSEYMKRYKDPKWDTCGPCYRELLHYRLSRRLLEQTHNPWLWDGWGPSSNSDDSSSSGGGGAS |
| MHCGSKVKSEYMKRYK.PKWDTCGP.Y.ELLHYRLSRRLLEQTHNPWLWDGWG.SSNSDDSSSSGGGGAS | |
| Retrocopy | MHCGSKVKSEYMKRYKVPKWDTCGPYYQELLHYRLSRRLLEQTHNPWLWDGWGSSSNSDDSSSSGGGGAS |
| Parental | TPLGPQGASAPSPPQTPLKPEREGEELGVEEKGAEASEDEDAASPPETPGKVTQEKDKQQMEVKKEQIEV |
| TPL.PQGASAPSPPQTPLK..RE.EELGVEEKGAEASEDEDAAS.PETPGK.TQEK.KQQM.VKK.QI.V | |
| Retrocopy | TPLCPQGASAPSPPQTPLKSKREEEELGVEEKGAEASEDEDAASLPETPGKDTQEKNKQQMKVKKQQIAV |
| Parental | KDKLMDNTDHPRQRALLSGADKKTAKSPQRPSKTKEVKHPFALYGWGEKQTDTGSQKTHNVCASAPEQQI |
| KDKLMDNTDHP.QRALLSGA.KKTAKSPQRPSKTKEVKHPFALYGWGEKQTDTGSQKTHNVCASA.EQQ. | |
| Retrocopy | KDKLMDNTDHPPQRALLSGANKKTAKSPQRPSKTKEVKHPFALYGWGEKQTDTGSQKTHNVCASASEQQF |
| Parental | HESALRAKNRRQVEKRKLVNQRQRAYSVDVQKPRRSKPSSSDSPWMTEYMRCYSARA |
| HE.ALRAKNRRQVEKRKLV.QRQR.....VQK.RR.KPSSS...WMTEYMRCYSARA | |
| Retrocopy | HETALRAKNRRQVEKRKLVSQRQR----EVQKHRRNKPSSS---WMTEYMRCYSARA |
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_168 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_168 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 | ENSMODG00000008872 | 1 retrocopy |
retro_mdom_168 ,
|