RetrogeneDB ID: | retro_cpor_881 | ||
Retrocopy location | Organism: | Guinea Pig (Cavia porcellus) | |
| Coordinates: | scaffold_31:13194614..13194877(+) | ||
| Located in intron of: | ENSCPOG00000002386 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TIMM9 | ||
| Ensembl ID: | ENSCPOG00000020422 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cpor_881
ATGGCTTTACAGATATCGCAATCCAATTAGATGCAACAGTTTAGGGAATTCCCGGGAACCTATAATAAACTTACAGAAAA
CTGCTTTTTGGATTGTGTTAAGGCTTCACAATGAGATGTAAAATCTGAAGAGATCACTTGTTCAGAATAGTGTGTACAGA
AGTATTTAAAAGTGACACAGAGAATATCCATGAGATTCAGGAGTATCTCATTTAGCAGACTGAAGCCCTAGCTGCTAAAG
CAGGACTCGCTGGCCAATCGAGA
ORF - retro_cpor_881 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 73.33 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MAAQISESDQIKQFREFLGTYNKLTETCFLDCVKDFTTREVKPEEITCSEHCLQKYLKMTQRISMRF-QE |
| MA.QIS.S....QFREF.GTYNKLTE.CFLDCVK......VK.EEITCSE.C.QKYLK.TQRISMRF.QE | |
| Retrocopy | MALQISQSN*MQQFREFPGTYNKLTENCFLDCVK-ASQ*DVKSEEITCSE*CVQKYLKVTQRISMRF<QE |
| Parental | YHIQQNEALAAKAGLLGQPR |
| Y.I.Q.EALAAKAGL.GQ.R | |
| Retrocopy | YLI*QTEALAAKAGLAGQSR |
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 .06 RPM | 6 .04 RPM |
| SRP017611_kidney | 0 .00 RPM | 6 .07 RPM |
| SRP017611_liver | 0 .04 RPM | 4 .79 RPM |
| SRP040447_lung | 0 .00 RPM | 3 .13 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_881 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_881 was not experimentally validated.