RetrogeneDB ID: | retro_dnov_747 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_104147:3531..4150(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DEPTOR | ||
| Ensembl ID: | ENSDNOG00000015660 | ||
| Aliases: | None | ||
| Description: | DEP domain containing MTOR-interacting protein [Source:HGNC Symbol;Acc:22953] |
Retrocopy-Parental alignment summary:
>retro_dnov_747
TGTGGTGAGCATAAGGAGTTCAAGGATGTCAAACTCTTCTGCTGCTTTATAAAGGATGATAGCATCTTCCCATTGGACAT
TGAGAATAAAGGCCTTCATGAGAAGATAGAGGCTCTATGAGATGATGATAAGCCCTGAAAATGCACTCCTGCAGCCCAGG
GAGGAGAAAAGGTTCAAATATGAGTACACTTTCAAGGCATCTGAATTCATGGACTGGTTGGTTCAAGAAGGTGAGGTCAC
CACAAGGAAAGAGGCAGTGCAGCTTTGCCATTAAAAGGAAAAGGGAAGCTGGAGCATGACATCACACAGTATGTGTCCAA
TAAACACAAATCTTCTTTACCAGTTCAGAATGAACTCCCTTCGGACTCAGAAACTAATGAAGCTGCTCAATGAAAAGTCC
CCCTCTTTCCTGGAAACTCATGATAGTCCTTTCTGCTTCAGAAAGCAAAACCATGACAATCAGAAATCTGCCAGTTTTAT
GTCAGTCAGTCCCAGCTAGGAACTCAAGATTGTGTCTGTGGTGAGGAGGAGCAGCATGGTCAACTGTGGCAGCAATGGCT
ACTTCAGCAGGAGCCCCACACTCAGCTGCAGCTTCCCTGTGCTCTGCAACCTCAAGTCT
ORF - retro_dnov_747 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.67 % |
| Parental protein coverage: | 50.99 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | CDEHKEFKDVKLFYRFRKDDGTFPLDNE-VKAFMRGQRLYEKLMSPENTLLQPREEEGIKYERTFMASEF |
| C.EHKEFKDVKLF..F.KDD..FPLD.E..KAFMR..RLYE...SPEN.LLQPREE...KYE.TF.ASEF | |
| Retrocopy | CGEHKEFKDVKLFCCFIKDDSIFPLDIE>IKAFMRR*RLYEMMISPENALLQPREEKRFKYEYTFKASEF |
| Parental | LDWLVQEGEATTRKEAEQLCHRLMEHGIIQHVSNKHPFLDSNLLYQFRMNFRRRRRLMELLNEKSPSSQE |
| .DWLVQEGE.TTRKEA.QLCH...E.G.....S........NLLYQFRMN..R...LM.LLNEKSPS..E | |
| Retrocopy | MDWLVQEGEVTTRKEAVQLCH*-KEKGSWSMTSHSMCPINTNLLYQFRMNSLRTQKLMKLLNEKSPSFLE |
| Parental | THDSPFCLRKQSHDNRKSTSFMSVSPSKEIKIVSVVRRSSMSSCGSSGYFSSSPTLSSSPPVLCNPKS |
| THDSPFC.RKQ.HDN.KS.SFMSVSPS.E.KIVSVVRRSSM..CGS.GYFS.SPTLS.S.PVLCN.KS | |
| Retrocopy | THDSPFCFRKQNHDNQKSASFMSVSPS*ELKIVSVVRRSSMVNCGSNGYFSRSPTLSCSFPVLCNLKS |
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 | 30 .34 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 4 .26 RPM |
| SRP012922_heart | 0 .00 RPM | 2 .55 RPM |
| SRP012922_kidney | 0 .00 RPM | 2 .19 RPM |
| SRP012922_liver | 0 .00 RPM | 7 .74 RPM |
| SRP012922_lung | 0 .00 RPM | 2 .90 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 3 .98 RPM |
| SRP012922_spleen | 0 .00 RPM | 5 .61 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_747 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000005497 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000015660 | 1 retrocopy |
retro_dnov_747 ,
|
| Ictidomys tridecemlineatus | ENSSTOG00000013845 | 1 retrocopy |