RetrogeneDB ID: | retro_mdom_1343 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 4:83933723..83934251(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TEX9 | ||
| Ensembl ID: | ENSMODG00000008144 | ||
| Aliases: | None | ||
| Description: | testis expressed 9 [Source:HGNC Symbol;Acc:29585] |
Retrocopy-Parental alignment summary:
>retro_mdom_1343
AAGATCAATAAATCTGATTCCATAACGAAAATTCAAAACAAGTCACAGTCTGGGAATAAAAGAAAGAGAAAAACTTGAAG
TATAAAATTGAAACGTGTTAATTGCAAACTACCAATGATGTTGCCACCCAGAGGACTTCATAGACTTTTCACTTACAAAT
ACAATTAATAGAATTGAAGGAAAATTAGAGCGATTTACCTGATGACACAGATGATGATGATATTTTCTCTGGGCTCAAGG
AAGACATTGAAACTGAGGACCAGATCAGATTTCTAAAGGCAAAACTCCATGTTATATAGGTGGAATTGGATAGACTTATG
TATGATTGTAATAAAAAAGGAGGATGAAGTAAGGCATTTAAAAACATCTCTTAAAAGATATTAATGAATTTTATATTAGA
ATGGAGAAAATAATATTCAACAATCTCAGATTGAAAAATACAAAAATATTTTCAGAAGAATCAATCAAAAATGTGATAGA
TTTCAGCAACAGCTGATTGCAGTAGAAAAGAAATTGGATACTAGAAAG
ORF - retro_mdom_1343 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 57.3 % |
| Parental protein coverage: | 62.24 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 6 |
Retrocopy - Parental Gene Alignment:
| Parental | KIKKSDSITDLQNKPKSGNKGKKKTSSVKLKHAN-MQLSTDVAV-PEDFTD-FSLKSTIHRIEGKLDEGD |
| KI.KSDSIT..QNK..SGNK.K.KT.S.KLK..N..Q...DVA..PEDF.D.F.L...I..IE.K....D | |
| Retrocopy | KINKSDSITKIQNKSQSGNKRKRKT*SIKLKRVN<LQTTNDVAT<PEDFID>FHLQ--IQLIELKEN*SD |
| Parental | LLVDIDED-VFHGLSEGIVTEAQIRFLKAKLRVMQEELDSLVYDCN-KKEDETRNLKAS-LKDINEERVR |
| L..D.D.D..F.GL.E.I.TE.QIRFLKAKL.V...ELD.L.YDCN.KKEDE.R.LK.S.LKDINE...R | |
| Retrocopy | LPDDTDDDDIFSGLKEDIETEDQIRFLKAKLHVI*VELDRLMYDCN>KKEDEVRHLKTS>LKDINEFYIR |
| Parental | MERTINIQQSQIEKYKMLSEE-LNKKCDGLQQQLTAVEKELDNRR |
| ME..I..........K..SEE..N.KCD..QQQL.AVEK.LD.R. | |
| Retrocopy | MEKII-FNNLRLKNTKIFSEE<INQKCDRFQQQLIAVEKKLDTRK |
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 | 30 .16 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 9 .79 RPM |
| SRP007412_heart | 0 .00 RPM | 1 .20 RPM |
| SRP007412_kidney | 0 .00 RPM | 5 .27 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
| SRP007412_testis | 0 .00 RPM | 283 .85 RPM |
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_1343 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1343 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 | ENSMODG00000008144 | 1 retrocopy |
retro_mdom_1343 ,
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