RetrogeneDB ID: | retro_dnov_1659 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_258211:812..1109(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TMEM47 | ||
| Ensembl ID: | ENSDNOG00000006509 | ||
| Aliases: | None | ||
| Description: | transmembrane protein 47 [Source:HGNC Symbol;Acc:18515] |
Retrocopy-Parental alignment summary:
>retro_dnov_1659
GTCACGACCGTCCACCAGTATTACTGTCCCTGGGGGAGTCCTGCCGGAAACCCGCCAGCTGGACATCTGTCCTGCCAGTC
CACGCTCAGCAGCGATTGGAAGATTGCTATGCTGGCTTTATTCTTGGGCGGTGCTGCCATCATTCTCATTGCCTTCCTGG
TGGGTTTGATTTCCATCTGCGTGGGGTCTCGAAGGCCCTTCTACCGACCTGTTGTTGTCATGATTTTTGCAGCAGTTGTT
TTACAGATATGTCGCCTGGTCCTTTACCCAATGAAGTTCATTGAAACTGTTGGGGTT
ORF - retro_dnov_1659 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.58 % |
| Parental protein coverage: | 55.25 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | VTADHQYY-LSLWESCRKPAS-LDIW-HCESTLSSDWQIATLALLLGGAAIILIAFLVGLISICVGSRRR |
| VT..HQYY.LSL.ESCRKPAS.LDI...C.STLSSDW.IA.LAL.LGGAAIILIAFLVGLISICVGSRR. | |
| Retrocopy | VTTVHQYY<LSLGESCRKPAS<LDIC<SCQSTLSSDWKIAMLALFLGGAAIILIAFLVGLISICVGSRRP |
| Parental | FYRPVAVMLFAAVVLQVCSLVLYPIKFIETVSL |
| FYRPV.VM.FAAVVLQ.C.LVLYP.KFIETV.. | |
| Retrocopy | FYRPVVVMIFAAVVLQICRLVLYPMKFIETVGV |
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 | 5 .45 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 11 .82 RPM |
| SRP012922_heart | 0 .00 RPM | 1 .39 RPM |
| SRP012922_kidney | 0 .00 RPM | 1 .92 RPM |
| SRP012922_liver | 0 .15 RPM | 2 .32 RPM |
| SRP012922_lung | 0 .00 RPM | 7 .03 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 7 .79 RPM |
| SRP012922_spleen | 0 .00 RPM | 8 .47 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_1659 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 | ENSDNOG00000006509 | 1 retrocopy |
retro_dnov_1659 ,
|
| Macaca mulatta | ENSMMUG00000004530 | 1 retrocopy | |
| Ictidomys tridecemlineatus | ENSSTOG00000019440 | 1 retrocopy |