RetrogeneDB ID: | retro_dnov_665 | ||
Retrocopylocation | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_7412:178492..178911(-) | ||
| Located in intron of: | ENSDNOG00000010588 | ||
Retrocopyinformation | Ensembl ID: | ENSDNOG00000010660 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | CUTC | ||
| Ensembl ID: | ENSDNOG00000015690 | ||
| Aliases: | None | ||
| Description: | cutC copper transporter homolog (E. coli) [Source:HGNC Symbol;Acc:24271] |
Retrocopy-Parental alignment summary:
>retro_dnov_665
ACGGGAAATGGATTTCTCATGGAAGTGTGTGCAGATTCAGTGGAGTTAGCAATAAATGCAAAAAGAGGGGGTCCTAGTTA
GATTGAATTATGTTCTGGTTCATTGGAAAGAGAAACCACACCCAGCATGGGTATCCTTCAAATAGTGAAGCAGAGTGTCC
AATCCCCAGTTTTTGTGATGATTCAGCCACATGGAGGTGATTTTTTATTTTCATATTGTGAAACTGAGGTGATGAAGGCT
GACATTCATTTGCCAAGCTTTATGGTGCTGATGGTTTGGTGTTTGGGGCATTGACTGAAGATGGACACATTTACAAAGAG
CTGTGCATGTCCCTTCTGGCTATTTGCCATCCTCTACCAGTGACTTTCCACCAAGCCTTTGGCATGGTTCACAATCCAGT
GGCAGCTCTAGAGACACTC
ACGGGAAATGGATTTCTCATGGAAGTGTGTGCAGATTCAGTGGAGTTAGCAATAAATGCAAAAAGAGGGGGTCCTAGTTA
GATTGAATTATGTTCTGGTTCATTGGAAAGAGAAACCACACCCAGCATGGGTATCCTTCAAATAGTGAAGCAGAGTGTCC
AATCCCCAGTTTTTGTGATGATTCAGCCACATGGAGGTGATTTTTTATTTTCATATTGTGAAACTGAGGTGATGAAGGCT
GACATTCATTTGCCAAGCTTTATGGTGCTGATGGTTTGGTGTTTGGGGCATTGACTGAAGATGGACACATTTACAAAGAG
CTGTGCATGTCCCTTCTGGCTATTTGCCATCCTCTACCAGTGACTTTCCACCAAGCCTTTGGCATGGTTCACAATCCAGT
GGCAGCTCTAGAGACACTC
ORF - retro_dnov_665 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.43 % |
| Parental protein coverage: | 55.78 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | TANGFLMEVCVDSVESAVNAERGGAGRIELCSGLLEGGTTPSMGVLQIVKQSVQIPVFVMIRPRGGDFLY |
| T.NGFLMEVC.DSVE.A.NA.RGG...IELCSG.LE..TTPSMG.LQIVKQSVQ.PVFVMI.P.GGDFL. | |
| Retrocopy | TGNGFLMEVCADSVELAINAKRGGPS*IELCSGSLERETTPSMGILQIVKQSVQSPVFVMIQPHGGDFLF |
| Parental | SDREIEVMKADIRL-AKLYGADGLVFGALTEDGHIDKELCMSLVAICRPLPVTFHRAFDMVHDPMAALES |
| S..E.EVMKADI.L.AKLYGADGLVFGALTEDGHI.KELCMSL.AIC.PLPVTFH.AF.MVH.P.AALE. | |
| Retrocopy | SYCETEVMKADIHL<AKLYGADGLVFGALTEDGHIYKELCMSLLAICHPLPVTFHQAFGMVHNPVAALET |
| Parental | L |
| L | |
| Retrocopy | L |
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 |
|---|---|---|
| SRP012922_ascending_colon | 0 .00 RPM | 3 .11 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 0 .96 RPM |
| SRP012922_heart | 0 .00 RPM | 2 .32 RPM |
| SRP012922_kidney | 0 .00 RPM | 2 .19 RPM |
| SRP012922_liver | 0 .00 RPM | 1 .08 RPM |
| SRP012922_lung | 0 .00 RPM | 2 .90 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 11 .94 RPM |
| SRP012922_spleen | 0 .00 RPM | 4 .01 RPM |
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_665 was not experimentally validated.
Retrocopy orthology:
Dasypus novemcinctus 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 | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000015690 | 1 retrocopy |
retro_dnov_665 ,
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