RetrogeneDB ID: | retro_dnov_116 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_1762:43001..43370(-) | ||
| Located in intron of: | ENSDNOG00000000905 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GSTZ1 | ||
| Ensembl ID: | ENSDNOG00000017287 | ||
| Aliases: | None | ||
| Description: | glutathione S-transferase zeta 1 [Source:HGNC Symbol;Acc:4643] |
Retrocopy-Parental alignment summary:
>retro_dnov_116
AAGGAGACTCAGAAGAGGGCCAGCGTGCGCATGATTTCCAACCTCATCGCTGGTGACATCCAACCTCTATAGAACTTGTC
TGTCCTGAAGCAAGTGAGTCAGGAGAATCAGCTGACCTGGGCCCAGAATGCCATCAGTTCTGCTTTAACGCTCTGGCACA
TCCTGCAGAGCATAGCAGGGAATGTGGAAGATGAGGTTTCCATGGCTGATTTGTGTCTAGTCCCTCAGGTGGCAAAAGCC
AAAAGTTTCAAGGTGGATCTCACTCCCTACCCCACCACTGGCCTCATCAACAGACACTGTTGGCCTTAAGAGGCCTTCCA
ACTGTCTCACCCTTGCCGGCAGCCAGATAAATGCCCTGAGTTGAGGGCT
ORF - retro_dnov_116 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 73.44 % |
| Parental protein coverage: | 59.52 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | QDPKKRASVRMISDLITGGIQPLQNLSVLKQLSQENQLTWAQNAICSGFNALEQILQSTAGKYCVEDEF- |
| ....KRASVRMIS.LI.G.IQPL.NLSVLKQ.SQENQLTWAQNAI.S....L..ILQS.AG...VEDE.. | |
| Retrocopy | KETQKRASVRMISNLIAGDIQPL*NLSVLKQVSQENQLTWAQNAISSALT-LWHILQSIAGN--VEDEVS |
| Parental | MTDLCLVPQVANAERFKVDLTPYPTISRINK-TLLAL-EAFQLSHPCRQPDTPPELRA |
| M.DLCLVPQVA.A..FKVDLTPYPT...IN..TLLAL.EAFQLSHPCRQPD..PELRA | |
| Retrocopy | MADLCLVPQVAKAKSFKVDLTPYPTTGLINR<TLLAL>EAFQLSHPCRQPDKCPELRA |
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 | 10 .89 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 3 .30 RPM |
| SRP012922_heart | 0 .00 RPM | 6 .50 RPM |
| SRP012922_kidney | 0 .00 RPM | 52 .57 RPM |
| SRP012922_liver | 0 .46 RPM | 150 .63 RPM |
| SRP012922_lung | 0 .31 RPM | 7 .33 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 12 .81 RPM |
| SRP012922_spleen | 0 .00 RPM | 9 .50 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_116 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 | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000017287 | 1 retrocopy |
retro_dnov_116 ,
|
| Monodelphis domestica | ENSMODG00000005427 | 1 retrocopy | |
| Xenopus tropicalis | ENSXETG00000011079 | 1 retrocopy |