RetrogeneDB ID: | retro_cpor_797 | ||
Retrocopy location | Organism: | Guinea Pig (Cavia porcellus) | |
| Coordinates: | scaffold_28:25778133..25778455(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PPIH | ||
| Ensembl ID: | ENSCPOG00000008214 | ||
| Aliases: | None | ||
| Description: | Peptidyl-prolyl cis-trans isomerase [Source:UniProtKB/TrEMBL;Acc:H0VBU7] |
Retrocopy-Parental alignment summary:
>retro_cpor_797
ATGGCAATGGCTAATATAGTCCCCATAAGCCCTGTGTTGTTCTTTCATGTCAGTGTCGGTGGCCACAAAGTTGTCTGCAT
AAAGATAGAAATGTTTGAAGATGTCATGCTGAAGACAGCCAAGAACTTCAGGCAGTTCTGCACTGGAAAATTTCACAAAA
GATGGGGCTCCAAGAGGGTATAAGGAAAATACCTTCCACAGGGGCATAAAAGATTTCATGATTCAAGGTCAAGATTTTGT
TAATGGAGATGGTACTGGAATTGCCAGTATGTACAAGAGCCCATTTGCAGGTTAAAATCTGAGACTCAGATCCTCAGCTC
CA
ORF - retro_cpor_797 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 66.67 % |
| Parental protein coverage: | 60.45 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MAVANSSPVNPVVFFDVSIGGQEVGRMKIELFADVVPKTAENFRQFCTGEFRK-DGVPIGYKGSTFHRVI |
| MA.AN..P..PV.FF.VS.GG..V...KIE.F.DV..KTA.NFRQFCTG.F.K.DG.P.GYK..TFHR.I | |
| Retrocopy | MAMANIVPISPVLFFHVSVGGHKVVCIKIEMFEDVMLKTAKNFRQFCTGKFHK>DGAPRGYKENTFHRGI |
| Parental | KDFMIQGGDFVNGDGTGVASIYRGPFADENFKLRHSAP |
| KDFMIQG.DFVNGDGTG.AS.Y..PFA..N..LR.SAP | |
| Retrocopy | KDFMIQGQDFVNGDGTGIASMYKSPFAG*NLRLRSSAP |
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 .38 RPM |
| SRP017611_kidney | 0 .00 RPM | 11 .83 RPM |
| SRP017611_liver | 0 .00 RPM | 9 .66 RPM |
| SRP040447_lung | 0 .00 RPM | 11 .80 RPM |
| SRP040447_skeletal_muscle | 0 .00 RPM | 5 .51 RPM |
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_797 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_797 was not experimentally validated.