RetrogeneDB ID: | retro_pmar_22 | ||
Retrocopy location | Organism: | Lamprey (Petromyzon marinus) | |
| Coordinates: | GL495798:3040..3442(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | iars | ||
| Ensembl ID: | ENSPMAG00000000527 | ||
| Aliases: | None | ||
| Description: | isoleucyl-tRNA synthetase [Source:ZFIN;Acc:ZDB-GENE-030131-6325] |
Retrocopy-Parental alignment summary:
>retro_pmar_22
GATGTTGTCACTAGATACGCAACTATGAAGGGTCATCACGTTGAGAGAAGATTTGGGTGGGATTGCCACGGTCTTCCAAT
CGAATACGAAATCGACAAGAAATACGAGATTAAGTCATCAATTCAAAGAGAAGAGATGGGAGTAAAAGAATATAACAGAA
GATGCAGAGAGATCGTTATGACATATTCTAAAGAATGGAAACACATTATCGGAAGATTCGGTCGTTGGATCGATTTCGAA
AATGACTACAAAACTATGGACTGCAATTTTATGGAGAGTGTATGGTGGACATTCAAGTAAATCTTTGACCAGGGATTGGT
TTATAGAGGTTCCAGAATCATGCCATTTTCCACTGGTTGCACTACAGTTTTATCAAACTTTGAAGCTGGTTCTAACTATA
AG
ORF - retro_pmar_22 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 61.94 % |
| Parental protein coverage: | 67.34 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | DVVTRFAHQSGFHVDRRFGWDCHGLPVEYEIDKMLNIKGPEDVAKMGIVEYNNQCRNIVMRYAKEWETTV |
| DVVTR.A...G.HV.RRFGWDCHGLP.EYEIDK...IK.......MG..EYN..CR.IVM.Y.KEW.... | |
| Retrocopy | DVVTRYATMKGHHVERRFGWDCHGLPIEYEIDKKYEIKSSIQREEMGVKEYNRRCREIVMTYSKEWKHII |
| Parental | IRLGRWIDFKNDYKTLYPSFMETVWWVFRQLFDKGFVYSGVKVMPYSTACTTPLSNFEANQNYK |
| .R.GRWIDF.NDYKT....FME.VWW.F...FD.G.VY.G...MP.ST.CTT.LSNFEA..NYK | |
| Retrocopy | GRFGRWIDFENDYKTMDCNFMESVWWTFK*IFDQGLVYRGSRIMPFSTGCTTVLSNFEAGSNYK |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Petromyzon marinus was not studied using RNA-Seq expression data.
Petromyzon marinus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pmar_22 retrocopy.
Petromyzon marinus was not studied using FANTOM5 data.
retro_pmar_22 was not experimentally validated.
Retrocopy orthology:
Petromyzon marinus 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Petromyzon marinus | ENSPMAG00000000527 | 1 retrocopy |
retro_pmar_22 ,
|