RetrogeneDB ID: | retro_fcat_1639 | ||
Retrocopy location | Organism: | Cat (Felis catus) | |
| Coordinates: | D4:65696077..65696557(-) | ||
| Located in intron of: | ENSFCAG00000018633 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSFCAG00000028482 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_fcat_1639
ATGTGTTCCCACTTCAACCACGATGAAATTAAAAGGCTGAGCAAGAGGTTTAAGAAGCTGGACTTGGACTGTTCGGGCTC
TCTGAGCGTGGACGAGTTCTTGTCCCTGCCCGAGCTGCGGCAGAACCCGTTGGTGCAGCGAGTGATCGACGTCTTCGACA
CCGACGGCAATGGAGAGGTGGACTTTGAGGAGTTCGTCGTGGGGACCTCCCAGTTCAGCGTCAGGGGGGACGAGGAGCAG
AAGTTGAGGTTTGCCTTCAGCATCTACGACATGGATAAAGACGGCTACATTTCCAACGGGGAGCTGTTCCAGGTGCTGAA
GATGATGGTGGGGAACAACCTGCAAGACTGGCAGTTACAGCAGATCGTGGACAAAACCATCATCATCCTGGACAGGGATG
GCGACGGGAGAATATCCTTCGAGGAATTCAGTGCGGTGGTCGGAAACCTGGAGGTCCACAAGAAGTTGGTGGTAATTGTG
ORF - retro_fcat_1639 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 83.75 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MCSHFDADEIKRLGKRFKKLDLDNSGSLSVEEFMSLPELQQNPLVQRVIDIFDTDGNGEVDFKEFIEGVS |
| MCSHF..DEIKRL.KRFKKLDLD.SGSLSV.EF.SLPEL.QNPLVQRVID.FDTDGNGEVDF.EF..G.S | |
| Retrocopy | MCSHFNHDEIKRLSKRFKKLDLDCSGSLSVDEFLSLPELRQNPLVQRVIDVFDTDGNGEVDFEEFVVGTS |
| Parental | QFSVKGDKEQKLRFAFRIYDMDKDGYISNGELFQVLKMMVGNNLKDTQLQQIVDKTIINADKDGDGRISF |
| QFSV.GD.EQKLRFAF.IYDMDKDGYISNGELFQVLKMMVGNNL.D.QLQQIVDKTII..D.DGDGRISF | |
| Retrocopy | QFSVRGDEEQKLRFAFSIYDMDKDGYISNGELFQVLKMMVGNNLQDWQLQQIVDKTIIILDRDGDGRISF |
| Parental | EEFCAVVGGLDIHKKMVVDV |
| EEF.AVVG.L..HKK.VV.V | |
| Retrocopy | EEFSAVVGNLEVHKKLVVIV |
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 .11 RPM | 152 .19 RPM |
| SRP017611_kidney | 0 .00 RPM | 13 .50 RPM |
| SRP017611_liver | 0 .00 RPM | 11 .73 RPM |
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_1639 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_1639 was not experimentally validated.