RetrogeneDB ID: | retro_ocun_671 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 13:124168125..124168652(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TRMT10B | ||
| Ensembl ID: | ENSOCUG00000010994 | ||
| Aliases: | None | ||
| Description: | tRNA methyltransferase 10 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:26454] |
Retrocopy-Parental alignment summary:
>retro_ocun_671
TGTATTGATTTGAGTATGACCCACCATATGTCAAAGAAGCAACTGAGTAGACTGGCTGGACAGATCTGAAGGTTGTATGG
TTCAAACGAGAAGGCTGACAGGCCATTTTGGGTCTACCTCACTGAGTTTACAACAGACAGCCCCTCTATAAAGAGTGTTT
GCGGATGAATGATGGATTTGCTGGTTACCTGCTAGACATAACAGAAGAAAACTACTTTAACTTATTTCCTTTGGAAACCC
TAGTTTACCTGACTCCTGACTCAGAACATGCTTTTGAAGATGTTACTCTAAACAAAGTTTACATCCTTAATGGACTTGTG
GATGAAAGTATTCAGAAGAAAGTAATATTTCAAAAGGCTTGGGAACACTCTGTCAAGACAGCCTGCTTGAAAATACAGGA
ATTCATGGTCAGATGCAAGAATCGGAAAAACTATCATTCAGAGATACTGGCCATCAACCAAGTATTTGATGTCCTGGCCA
CTTACTCTGAGACTCACAATTGGCCTGAAGCCTTGAAGAAAGGAGTC
ORF - retro_ocun_671 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 87.57 % |
| Parental protein coverage: | 55.7 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | CIDLSMTHHMSKKELSRLAGQIRRLYGSNKKADRPFWIYLTGFTTDSP-LYEECLRMNDGFSSYLLDITE |
| CIDLSMTHHMSKK.LSRLAGQI.RLYGSN.KADRPFW.YLT.FTTDSP.LY.ECLRMNDGF..YLLDITE | |
| Retrocopy | CIDLSMTHHMSKKQLSRLAGQI*RLYGSNEKADRPFWVYLTEFTTDSP<LYKECLRMNDGFAGYLLDITE |
| Parental | EDCFNLFPLETLVYLTPDSEHALEDVALNKVYILGGLVDESIQKKVTFQKAWEHSVKTARLPIQEYMVRC |
| E..FNLFPLETLVYLTPDSEHA.EDV.LNKVYIL.GLVDESIQKKV.FQKAWEHSVKTA.L.IQE.MVRC | |
| Retrocopy | ENYFNLFPLETLVYLTPDSEHAFEDVTLNKVYILNGLVDESIQKKVIFQKAWEHSVKTACLKIQEFMVRC |
| Parental | QNGKNYHSEILAINQVFDVLATYFETHSWPEALKKGV |
| .N.KNYHSEILAINQVFDVLATY.ETH.WPEALKKGV | |
| Retrocopy | KNRKNYHSEILAINQVFDVLATYSETHNWPEALKKGV |
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 |
|---|---|---|
| SRP017611_brain | 0 .00 RPM | 9 .33 RPM |
| SRP017611_kidney | 0 .00 RPM | 6 .39 RPM |
| SRP017611_liver | 0 .00 RPM | 2 .16 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_671 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_671 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_671 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000010994 | 1 retrocopy |
retro_ocun_671 ,
|
| Oryctolagus cuniculus | ENSOCUG00000015213 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000019056 | 1 retrocopy |