RetrogeneDB ID: | retro_dnov_783 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_107063:3601..4081(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDNOG00000016055 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TWSG1 | ||
| Ensembl ID: | ENSDNOG00000002791 | ||
| Aliases: | None | ||
| Description: | twisted gastrulation homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:12429] |
Retrocopy-Parental alignment summary:
>retro_dnov_783
GAGCTCTGCCAGTGCTGCAGGGACAATGATATTGTTACTGTTGTAAAGTGTGTGCTTTGTCTAGGTACTCTTTGGAATGA
GTGCTGTGACTGCATTAGTATGTGCAATCCTCTAAATGACAGTGACACACCTCCAACTTCCAAGAGCACCATGGAGGAGC
TGCATGAGTCAATCCCTTCTCTCTCCTGGGCACTCACAGAAGACACACAGTTGAACTGGAACATCATTTCCTTTCCTTTT
GCAGAATTACTTTCACATCATGAAAATCTGCTTTCCTTTTTGGAAAGTGAACCCACCACATCATCAAATGTGTCTATTCC
TGGCAACCATGTCCAGGCACCTTATTCCAGTGACAAAGAGCACATGTGCACTGTGAATTATTTCGACGACTGCATATCTA
TACATCAGTGTAAAATATTCTGTAAGTCCATGGGGGCCTCCAAGAACTGCCAGGTCTATAATGTCTGCTGTGATTGCATC
ORF - retro_dnov_783 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 62.2 % |
| Parental protein coverage: | 89.5 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | ELCQ-CRPGEGNCSCCKECMLCLGTLWDECCDCVGMCNPRNYSDTPPTSKSTVEELHEPIPSLFRALTEG |
| ELCQ.CR...........C.LCLGTLW.ECCDC..MCNP.N.SDTPPTSKST.EELHE.IPSL..ALTE. | |
| Retrocopy | ELCQCCR--DNDIVTVVKCVLCLGTLWNECCDCISMCNPLNDSDTPPTSKSTMEELHESIPSLSWALTE- |
| Parental | DTQLNWNIVSFPVAEELSHHENLVSFLETVNQPHHQNVSIPGNNVHAPYSSDKXXXXXXXXXXXXXXXHQ |
| DTQLNWNI.SFP.AE.LSHHENL.SFLE........NVSIPGN.V.APYSSDK...............HQ | |
| Retrocopy | DTQLNWNIISFPFAELLSHHENLLSFLES-EPTTSSNVSIPGNHVQAPYSSDKEHMCTVNYFDDCISIHQ |
| Parental | CK-SCESMGASKYRWFHNACCECI |
| CK..C.SMGASK.....N.CC.CI | |
| Retrocopy | CKIFCKSMGASKNCQVYNVCCDCI |
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 | 23 .92 RPM |
| SRP012922_cerebellum | 0 .27 RPM | 10 .45 RPM |
| SRP012922_heart | 0 .00 RPM | 4 .64 RPM |
| SRP012922_kidney | 0 .00 RPM | 6 .02 RPM |
| SRP012922_liver | 0 .00 RPM | 4 .49 RPM |
| SRP012922_lung | 0 .00 RPM | 13 .75 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 7 .10 RPM |
| SRP012922_spleen | 0 .00 RPM | 10 .99 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_783 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000002791 | 1 retrocopy |
retro_dnov_783 ,
|
| Equus caballus | ENSECAG00000018189 | 1 retrocopy |