RetrogeneDB ID: | retro_opri_116 | ||
Retrocopy location | Organism: | Southern American pika (Ochotona princeps) | |
| Coordinates: | GeneScaffold_2394:212776..213149(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ADAT2 | ||
| Ensembl ID: | ENSOPRG00000000144 | ||
| Aliases: | None | ||
| Description: | adenosine deaminase, tRNA-specific 2 [Source:HGNC Symbol;Acc:21172] |
Retrocopy-Parental alignment summary:
>retro_opri_116
GCTACTTGACATGCAGAAATGGTAGCCATCGACTAGGTCCTGGACTGGTGTCGCCAACATGGCAAGAGTCCGGGTAAGGT
ATTCGAGAGCACCGTGCTGTACGCCACGGTGGAGCCGTGCATCATGTGCTCAGCCGCCCTCTACCTCATGAAAATCCCAC
TGGTTGTCTATGGCTGTCAGAATGAACGGTTTGGTGGTTGTGGCTCTGTCCTGAACATTGCTTCTGCTGACTTACCAAAT
ACTGGGAAACCATTTCAGTGCCTTCCTGGATATCGGGCCAAGGAAGCAGTTGAAATATTAAAGACCTTCTATAAACAAGA
AAACCCAAATGCACCCAAATCAAAAGTTCGGAAAGAAAGAATGTCAGAAGTCC
ORF - retro_opri_116 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 89.6 % |
| Parental protein coverage: | 77.99 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | ATRHAEMVAIDQVLDWCRQHGKSAGEVFERTVLYVTVEPCIMCAAALRLMKIPLVVYGCQNERFGGCGSV |
| AT.HAEMVAID.VLDWCRQHGKS.G.VFE.TVLY.TVEPCIMC.AAL.LMKIPLVVYGCQNERFGGCGSV | |
| Retrocopy | AT*HAEMVAID*VLDWCRQHGKSPGKVFESTVLYATVEPCIMCSAALYLMKIPLVVYGCQNERFGGCGSV |
| Parental | LNIASADLPHTGKPFECLPGYRAEEAVEMLKTFYKQENPNAPKSKVR-KKECQKS |
| LNIASADLP.TGKPF.CLPGYRA.EAVE.LKTFYKQENPNAPKSKVR.KKECQKS | |
| Retrocopy | LNIASADLPNTGKPFQCLPGYRAKEAVEILKTFYKQENPNAPKSKVR>KKECQKS |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Ochotona princeps was not studied using RNA-Seq expression data.
Ochotona princeps was not studied using ChIP-Seq data.
Ochotona princeps was not studied using EST data.
Ochotona princeps was not studied using FANTOM5 data.
retro_opri_116 was not experimentally validated.
Retrocopy orthology:
Ochotona princeps 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 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ochotona princeps | ENSOPRG00000000144 | 2 retrocopies |
retro_opri_1023, retro_opri_116 ,
|