RetrogeneDB ID: | retro_opri_903 | ||
Retrocopy location | Organism: | Southern American pika (Ochotona princeps) | |
| Coordinates: | scaffold_42940:2397..3144(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PRCP | ||
| Ensembl ID: | ENSOPRG00000009317 | ||
| Aliases: | None | ||
| Description: | prolylcarboxypeptidase (angiotensinase C) [Source:HGNC Symbol;Acc:9344] |
Retrocopy-Parental alignment summary:
>retro_opri_903
ACTCATGGTGGCATGCTTGTAACCTGGTTCAGGATGAAAAACCTGCATATGGAGGTTGGAGCTCTTGCAGCTTCTGCCCC
TGTCTGGCAGTTTGAGGATCTGCTGCCTTGTGAAGGATTTATGAAGATTGTAACTACTGATTTTCTGAAAAGCAATCCAG
GTTGTCCAGAGAGCATCCACAGGTCTTGGGGTGCCATTAATCACCTCTCAAATAAAAGCCGTGGTTTGCAGTGGCTTACT
GAAACCCTTCACTTATGTGGTGCATTAAGTTATCAAGACATCCCACACTTGAAATAATGGATTTCTGATTCCTCGGTGAA
TCTGACAATGGTGGATTATCCTTATGTATCTGACTTTTTACAGCCTTTGCCTGCATGGCCCATACAGGTAGTGTGTCAGT
ATTTGAAAGATCCCAGTGTATCTGACTCAGGACTGCTACAGAATATTTTCCAAGCTCTGAGTGTATATCACAATTATGCA
GGTCAGCCAAAGTGCCTATTTCAGAGACAATAACAGGCAATCTCAAATCCCTGGGCTGTGGCTATCAGGCCTGCACAGAA
ATAGCCATGCTCTTTTGTACTAATGGTGTTGATGACATGTTTCAACCTCACCTGTGGAACTTGGGAGAATTTTTTGATGA
CTGTTTTAAACAGTGGGGTGTGAGACAAAAGCCCTCCTGGATCATTACCTTTTATGGAGGCAAAAAAAATCAGTTCAAAC
TCAAATATAATTTTTAGCAATGCTGAA
ORF - retro_opri_903 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.21 % |
| Parental protein coverage: | 51.76 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | SYGGMLAAWFRMKYPHVVVGALAASAPIWQFEDLVSCGEFMKIVTTDFRKSNPGCPESIRRSWGVIDRIS |
| ..GGML..WFRMK..H..VGALAASAP.WQFEDL..C..FMKIVTTDF.KSNPGCPESI.RSWG.I...S | |
| Retrocopy | THGGMLVTWFRMKNLHMEVGALAASAPVWQFEDLLPCEGFMKIVTTDFLKSNPGCPESIHRSWGAINHLS |
| Parental | NTSHGLQWLTKALHLCGPLTYQDISHLKEWISESWVNLAMVDYPYASDFLQPLPAWPIKVVCQYLKDPNV |
| N.S.GLQWLT..LHLCG.L.YQDI.HLK.WIS.S.VNL.MVDYPY.SDFLQPLPAWPI.VVCQYLKDP.V | |
| Retrocopy | NKSRGLQWLTETLHLCGALSYQDIPHLK*WISDSSVNLTMVDYPYVSDFLQPLPAWPIQVVCQYLKDPSV |
| Parental | SDSRLLQNIFQALNVYHNYSGQ-AKCLNISETATSNLGSLGWSYQACTEMVMPFCTNGIDDMFELHLWNL |
| SDS.LLQNIFQAL.VYHNY.GQ.AK...ISET.T.NL.SLG..YQACTE..M.FCTNG.DDMF..HLWNL | |
| Retrocopy | SDSGLLQNIFQALSVYHNYAGQ<AK-VPISETITGNLKSLGCGYQACTEIAMLFCTNGVDDMFQPHLWNL |
| Parental | EEFSDECFKQWGVRPRPSWITTLYGG-KNISSHSNIIFSNGD |
| .EF.D.CFKQWGVR..PSWI.T.YGG....SS.SNIIFSN.. | |
| Retrocopy | GEFFDDCFKQWGVRQKPSWIITFYGG>XXXSSNSNIIFSNAE |
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_903 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 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ochotona princeps | ENSOPRG00000009317 | 1 retrocopy |
retro_opri_903 ,
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