RetrogeneDB ID: | retro_mdom_303 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 1:48203781..48204335(+) | ||
| Located in intron of: | ENSMODG00000016112 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ABHD5 | ||
| Ensembl ID: | ENSMODG00000015241 | ||
| Aliases: | None | ||
| Description: | abhydrolase domain containing 5 [Source:HGNC Symbol;Acc:21396] |
Retrocopy-Parental alignment summary:
>retro_mdom_303
AGGATGAAGCACATTATCTTAGTGGAGCTGTAGGGTTTTCTAGAGAGACCTGATAGTATTGATCAAGACAGGCCAATTTC
AGTGTGGATCAAAGCCTTGGGAGCTGTACTGACCCCTTTAATCCCTTAGCTGGCCTTAGAATTGCAGGACCCTTTGGCTT
AAGCCTTGTGCAATGTTTAAAGCCCAATTTTAAGAGAAAATATGTTTCAATATTTGAAGATGATATTATGACAGACTATA
TCTACCACTGTAATGTAATGTAATATAAACAGACACCCAGTGGTGAAACTGCCTTTAGAAATATGACTATTTCTTATGGA
TGGGCCAAAAGACCAATGATCATGCGGATTGGGAAGATGGATCCAGACATTCTGATTTCTGTCATCTATGGAGCCCGATC
TTGCCTAGATGGCCATTCTGGCAACACCATCTAGTCCCTAAGGCCACATTCATATGTGAAGACTATTGCTATCCTTGGCA
CCAGACATTATGGCTACGCTGACCACCCAGAAGAATTCAACCAAAAAGCAAAGGAGATTTGTGATTCTGTGGAC
ORF - retro_mdom_303 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 83.33 % |
| Parental protein coverage: | 52.92 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | RVKHLILVEPWGFPERPDSADQDRPIPVWIKALGAVLTP-FNPLAGLRIAGPFGLSLVQRLRPDFKRKYA |
| R.KH.ILVE..GF.ERPDS.DQDRPI.VWIKALGAVLTP.FNPLAGLRIAGPFGLSLVQ.L.P.FKRKY. | |
| Retrocopy | RMKHIILVEL*GFLERPDSIDQDRPISVWIKALGAVLTP<FNPLAGLRIAGPFGLSLVQCLKPNFKRKYV |
| Parental | SMFEDDTVTEYIYHCNV----QTPSGETAFRNMTIPYGWAKRPMIMRIGKMDPDIPISVIYGARSCIDGN |
| S.FEDD..T.YIYHCNV....QTPSGETAFRNMTI.YGWAKRPMIMRIGKMDPDI.ISVIYGARSC.DG. | |
| Retrocopy | SIFEDDIMTDYIYHCNVM*YKQTPSGETAFRNMTISYGWAKRPMIMRIGKMDPDILISVIYGARSCLDGH |
| Parental | SGHTIQSLRPHSYVKTIAILGAGHYVYADQPEEFNQKVKEICDSVD |
| SG.TI.SLRPHSYVKTIAILG..HY.YAD.PEEFNQK.KEICDSVD | |
| Retrocopy | SGNTI*SLRPHSYVKTIAILGTRHYGYADHPEEFNQKAKEICDSVD |
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 .12 RPM | 0 .00 RPM |
| SRP007412_cerebellum | 0 .65 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .00 RPM |
| SRP007412_kidney | 1 .32 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .50 RPM | 0 .00 RPM |
| SRP007412_testis | 0 .39 RPM | 0 .00 RPM |
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_303 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_303 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 | |
|---|---|---|---|
| Echinops telfairi | ENSETEG00000012926 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000015241 | 1 retrocopy |
retro_mdom_303 ,
|
| Mustela putorius furo | ENSMPUG00000012931 | 1 retrocopy |