RetrogeneDB ID: | retro_etel_1794 | ||
Retrocopy location | Organism: | Lesser hedgehog tenrec (Echinops telfairi) | |
| Coordinates: | scaffold_297731:9556..10203(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MPDU1 | ||
| Ensembl ID: | ENSETEG00000018609 | ||
| Aliases: | None | ||
| Description: | mannose-P-dolichol utilization defect 1 [Source:HGNC Symbol;Acc:7207] |
Retrocopy-Parental alignment summary:
>retro_etel_1794
ATGACAGCCGAGGAACACGGCGTGCTGAAGCGGGCTCTCGTGCCGCTGCTGCTACCTGAGAAATGCTATGACCGGCTGTT
CATCCAGTGGGACTTGCTGCACGTCTCTTGCCTCCAGATTCTCCTTAGCAAAGGCCTGGGGCTGGGCATTGTATTCACTT
CCCTGCTGGTAAAACTGCCCCAGGTGTTTAAAATCCCGGGCCGCCAAGAGTGCAGAAGGGCTGAGTCTTCAGTGGGTCAT
GCTGGAGCTAGTGACCTGGACTGGGACTATGGTTTACAGCATCACCAACAAGTTTCCCTTCGGCTCTTGGGGTGAAGCCC
TCTTCCTGATGATCCAGACGCTCACCATTGGCTGCCTGGTCCTGCACTACAGGAGGCAGACTGTGAAAGGAGCCGCTTTC
CTACTGTTACACCCTGCTCCTGTTGCTGCTGCTCTCACCCCTGACCTCGCTGGCCGTGGTCACTTGGCTCCAGGCTTCCA
GCGTGCCTGCTGTGGTAGGGGGCAGGCTGCTCCAGGACACCACCAACTACTACAATGGGCACACAAGTCAGCTCTCAGCC
ATCACGGTCTTTCTCTTGTTTGGGGGCTCTCGGGCCCGGATCTTCACCTCCATTCAGGAAACGGGAGACCCTCTCGTGGC
TGGCACC
ORF - retro_etel_1794 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 83.03 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | MTAEGGGALKRALVPLLLPEK-YDRLFVQWDLLHVPCLKILLSKGLGLGIVSASLLVKLPQVFKI-LSAK |
| MTAE..G.LKRALVPLLLPEK.YDRLF.QWDLLHV.CL.ILLSKGLGLGIV..SLLVKLPQVFKI...AK | |
| Retrocopy | MTAEEHGVLKRALVPLLLPEKCYDRLFIQWDLLHVSCLQILLSKGLGLGIVFTSLLVKLPQVFKI>RAAK |
| Parental | SAEGLSLQSVMLELVALTGTMVYSTTNKFPFSSWGEALFLMLQTLTIGFLVLHYRGQTVKGVAFLVCY-T |
| SAEGLSLQ.VMLELV..TGTMVYS.TNKFPF.SWGEALFLM.QTLTIG.LVLHYR.QTVKG.AFL..... | |
| Retrocopy | SAEGLSLQWVMLELVTWTGTMVYSITNKFPFGSWGEALFLMIQTLTIGCLVLHYRRQTVKGAAFLLLH>L |
| Parental | LLLLLLLSPLTPLAVVTWLQASNVPAVVGGRLLQATTNYYNGHTGQLSAITVFLLFGGSLARIFTSIQEK |
| LLL.LLLSPLT.LAVVTWLQAS.VPAVVGGRLLQ.TTNYYNGHT.QLSAITVFLLFGGS.ARIFTSIQE. | |
| Retrocopy | LLL-LLLSPLTSLAVVTWLQASSVPAVVGGRLLQDTTNYYNGHTSQLSAITVFLLFGGSRARIFTSIQET |
| Parental | -EPFMAGT |
| ..P..AGT | |
| Retrocopy | GDPLVAGT |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Echinops telfairi was not studied using RNA-Seq expression data.
Echinops telfairi was not studied using ChIP-Seq data.
Echinops telfairi was not studied using EST data.
Echinops telfairi was not studied using FANTOM5 data.
retro_etel_1794 was not experimentally validated.
Retrocopy orthology:
Echinops telfairi 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 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Echinops telfairi | ENSETEG00000018609 | 3 retrocopies |
retro_etel_1794 , retro_etel_2092, retro_etel_331,
|
| Sus scrofa | ENSSSCG00000017955 | 1 retrocopy |