RetrogeneDB ID: | retro_cpor_641 | ||
Retrocopy location | Organism: | Guinea Pig (Cavia porcellus) | |
| Coordinates: | scaffold_21:5275102..5275395(+) | ||
| Located in intron of: | ENSCPOG00000012939 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RNASEK | ||
| Ensembl ID: | ENSCPOG00000004064 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cpor_641
ATGGCATCGCTCCTGTGCTGTGGCCCCAAGGTGGCCGCGTGCAGCATCGTCCTCAGCGCCTGGGGAGTGATCATGTTGAT
AATGCTCGGAATATTTTTTCAATGTGCACTCGGCTGTGTTGATTGAGGATGTTCCCTTCAAGGAGAAAGATTTCACGAAT
GGCCCTCAGAATATATACAAGCCTTACGAGCAAGTCAGCTACAACTGTTTCATCGCCCCTGGTCTTTACCTCCTCCGCGG
AGGCTTCTCTTTCTGCCAAGTTCCACTCAATAAGCGCAAGGGAATACGTGGTG
ORF - retro_cpor_641 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 89.9 % |
| Parental protein coverage: | 98.98 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | MASLLCCGPKVAACGIVLSVWGVIMLIMLGI-FFNVHSAVLIEDVPFTEKDFTNGPQNIYKLYEQVSYNC |
| MASLLCCGPKVAAC.IVLS.WGVIMLIMLGI.FFNVHSAVLIEDVPF.EKDFTNGPQNIYK.YEQVSYNC | |
| Retrocopy | MASLLCCGPKVAACSIVLSAWGVIMLIMLGI>FFNVHSAVLIEDVPFKEKDFTNGPQNIYKPYEQVSYNC |
| Parental | FIAAGLYLLLGGFSFCQVRLNKRK-EYMV |
| FIA.GLYLL.GGFSFCQV.LNKRK.EY.V | |
| Retrocopy | FIAPGLYLLRGGFSFCQVPLNKRK>EYVV |
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 | 45 .27 RPM |
| SRP017611_kidney | 0 .00 RPM | 61 .03 RPM |
| SRP017611_liver | 0 .00 RPM | 27 .55 RPM |
| SRP040447_lung | 0 .00 RPM | 55 .54 RPM |
| SRP040447_skeletal_muscle | 0 .00 RPM | 31 .64 RPM |
Cavia porcellus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cpor_641 retrocopy.
Cavia porcellus was not studied using FANTOM5 data.
retro_cpor_641 was not experimentally validated.
Retrocopy orthology:
Cavia porcellus 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 3 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Cavia porcellus | ENSCPOG00000004064 | 1 retrocopy |
retro_cpor_641 ,
|
| Dasypus novemcinctus | ENSDNOG00000023883 | 1 retrocopy | |
| Tarsius syrichta | ENSTSYG00000006902 | 2 retrocopies |