RetrogeneDB ID: | retro_fcat_1374 | ||
Retrocopy location | Organism: | Cat (Felis catus) | |
| Coordinates: | C2:136124782..136125071(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RPS19BP1 | ||
| Ensembl ID: | ENSFCAG00000029275 | ||
| Aliases: | None | ||
| Description: | ribosomal protein S19 binding protein 1 [Source:HGNC Symbol;Acc:28749] |
Retrocopy-Parental alignment summary:
>retro_fcat_1374
CCAGGCCAGGCCAAGCCCAATGGGGCTCCAGTGAAGCGCAGCCAGAAAGCAAAGGCAACCCAAGCCCAGAAACACGCAGA
ATTCAGCCAAGGGAAAGGTGCCCAAGTTGGCATTTGCTGAGTTCCAGAAGCAAGAGTGTCAAGACTACCTCGGAGTAAAC
CTGAAGTTTATAACCAGTGTTTAAAGCACAGTGGCTGAGTCAGTCACTCAGCAGATTGTGGGCCAGAACTAGGGCTGTAA
GGCCTGTGACCAGCCTGTGGCCAAGATGAAGAAGAAGGTAGCTGAGGAA
ORF - retro_fcat_1374 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.35 % |
| Parental protein coverage: | 68.57 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | PGQAKPSGAPVKRTRKAKATQAQK-LRNSAKGKVPKSALAEFQKRECQSYLGVNLKFMTSARSTVAESVT |
| PGQAKP.GAPVKR..KAKATQAQK...NSAKGKVPK.A.AEFQK.ECQ.YLGVNLKF.TS..STVAESVT | |
| Retrocopy | PGQAKPNGAPVKRSQKAKATQAQK>TQNSAKGKVPKLAFAEFQKQECQDYLGVNLKFITSV*STVAESVT |
| Parental | QQIVRQNRGRKACDRPVAKTKKKKKAE |
| QQIV.QN.G.KACD.PVAK.KKK...E | |
| Retrocopy | QQIVGQN*GCKACDQPVAKMKKKVAEE |
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 | 5 .85 RPM |
| SRP017611_kidney | 0 .00 RPM | 9 .58 RPM |
| SRP017611_liver | 0 .00 RPM | 2 .12 RPM |
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_1374 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_1374 was not experimentally validated.
Retrocopy orthology:
Felis catus 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 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000010936 | 1 retrocopy | |
| Erinaceus europaeus | ENSEEUG00000009817 | 1 retrocopy | |
| Felis catus | ENSFCAG00000029275 | 1 retrocopy |
retro_fcat_1374 ,
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