RetrogeneDB ID: | retro_mdom_1629 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 6:250032936..250033716(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | OAS1 | ||
| Ensembl ID: | ENSMODG00000003252 | ||
| Aliases: | None | ||
| Description: | 2'-5'-oligoadenylate synthetase 1, 40/46kDa [Source:HGNC Symbol;Acc:8086] |
Retrocopy-Parental alignment summary:
>retro_mdom_1629
TCATCTGGCAAAGGCACAGCACTGAGAGGACACTCCAAAGCAGACCTGGTGGTATTCCTCAGCAATCTCAAAAGCTATCA
GGACCAGATAGATTGCTGAAATGAGTTCATTGAGGAAATAAAAAAACAGCTGGAAGCATGTCAGCATGAGCAAGGGTGGA
AGTTTGAAGTCAAGTTTGAGGTCTACAGTTCCAGGACCAACCCTCAAGGGCTCAGATTTACTCTGAAGTCAACCAAGATC
CATCAGTGGGTGGACTTTGATGTGCTTCCAGACTTTGATGTTCTAGGCCAACTGACCACAGACTTCAGGAAACCTGACCC
CCAGGTCCACATCATAAAGGAATCCCAGAAAGCAGGAGAATTCTCTACCTGCTTCACAGAACTACAGAAGCAATTCCTCA
GCCAGAGTTGCACCAAGCTCAAAAGTCTGATCCAATTGGTGAAACACTGGTACAAAATGTGCAAGGAGAAAATGGACTCC
CTCCCTCCTCAATATGCTTTTAAGCTCCTGACTGTCTAGGCTTGGAAGCATGAGAGCCAGGAAACTAGATTTATCACAGT
CTGATCCTTTCAGACAGTCCTATACCTGATCCAGAAATACCAAGAATTCATGATCTACTGGACCATCAATTATGACATTG
ATAATGAGATCATTATGGATTATTTCTGTCATCAACTGCGGAAACACAGGCCAGTGATCCTGGACCCAACTGATCCAACT
GGAGATGTGGGAGGTGGAAGTTGATGGCACTGGGGCAAGCCGGCACAAGAAGCTCAAATT
ORF - retro_mdom_1629 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 66.92 % |
| Parental protein coverage: | 70.43 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | SSGKGTALRGLSDADLVVFLSNLQSYQDQIDRRSEFINEIKKQLEACQHEQGWMFEIEFEK-TRFPNPRV |
| SSGKGTALRG.S.ADLVVFLSNL.SYQDQID...EFI.EIKKQLEACQHEQGW.FE..FE......NP.. | |
| Retrocopy | SSGKGTALRGHSKADLVVFLSNLKSYQDQIDC*NEFIEEIKKQLEACQHEQGWKFEVKFEVYSSRTNPQG |
| Parental | LGFRLKFPGISHSMDFDVLPAFDVLGQLTRDFRKPDPRVYIDLIMESSWNGGEFSTCFTELQKRFLKERV |
| L.F.LK...I....DFDVLP.FDVLGQLT.DFRKPDP.V....I...S...GEFSTCFTELQK.FL.... | |
| Retrocopy | LRFTLKSTKIHQWVDFDVLPDFDVLGQLTTDFRKPDPQVH---IIKESQKAGEFSTCFTELQKQFLSQSC |
| Parental | TKLKSLIRLVKHWYKMCKKKVDSLPPQYALELLTIYAWEHGSRETSFNTAQGFRTVLYLIQQYQQLLVYW |
| TKLKSLI.LVKHWYKMCK.K.DSLPPQYA..LLT..AW.H.S.ET.F.T...F.TVLYLIQ.YQ....YW | |
| Retrocopy | TKLKSLIQLVKHWYKMCKEKMDSLPPQYAFKLLTV*AWKHESQETRFITV*SFQTVLYLIQKYQEFMIYW |
| Parental | TVYYDFEDEIIGNYLRLQLQKCRPVILDPADPTGDVGGGTRWQWGRLAQQARM |
| T..YD...EII..Y...QL.K.RPVILDP.DPTGDVGGG..W.WG..AQ.A.. | |
| Retrocopy | TINYDIDNEIIMDYFCHQLRKHRPVILDPTDPTGDVGGGS*WHWGKPAQEAQI |
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_1629 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1629 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 | |
|---|---|---|---|
| Myotis lucifugus | ENSMLUG00000015764 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000003252 | 1 retrocopy |
retro_mdom_1629 ,
|
| Mus musculus | ENSMUSG00000032623 | 1 retrocopy |