RetrogeneDB ID: | retro_fcat_810 | ||
Retrocopy location | Organism: | Cat (Felis catus) | |
| Coordinates: | B3:5276488..5276851(+) | ||
| Located in intron of: | ENSFCAG00000006087 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSFCAG00000005830 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_fcat_810
AGGTTTGGGAGAGATGAGGATCCTGTCTGTCTGCAGCCAGATGATATTCCTTCTGAGACGTCTTCTGACCTGAGTAGAAT
GGCTGCCATGTATCTGGTAGATGTGGACCGAACTCCCGTTTACACGCACTATTTTGACATCAGTTATATTCCATCTACTG
TGTTCTTCTTCGATGGGCAGCACATGGAAGTGAATTAGGGGTCTCCTGATCACACTAAGTTTGTGGGAAGTTTCAAAACC
AAGCAAGACTTCATAGATGTGGTTGAAGTAATTTATCGAGGAGCAGTGAGGGGAAAGCTTATTGTCCAAAGTCTTACTGA
TCCCAAGAATATTCCCAAATGTGACCTTCTCTATCAAGACATT
ORF - retro_fcat_810 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 87.6 % |
| Parental protein coverage: | 81.21 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | RFGRDEDPVCLQLDDILSKTSSDLSKMAAIYLVDVDQTPVYTHYFDISYIPSTVFFFNGQHMKVDYGSPD |
| RFGRDEDPVCLQ.DDI.S.TSSDLS.MAA.YLVDVD.TPVYTHYFDISYIPSTVFFF.GQHM.V..GSPD | |
| Retrocopy | RFGRDEDPVCLQPDDIPSETSSDLSRMAAMYLVDVDRTPVYTHYFDISYIPSTVFFFDGQHMEVN*GSPD |
| Parental | HTKFVGSFKTKQDFIDLVEVIYRGAMRGKLIVQSPIDPKNIPKYDLLYQDI |
| HTKFVGSFKTKQDFID.VEVIYRGA.RGKLIVQS..DPKNIPK.DLLYQDI | |
| Retrocopy | HTKFVGSFKTKQDFIDVVEVIYRGAVRGKLIVQSLTDPKNIPKCDLLYQDI |
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 .23 RPM | 6 .66 RPM |
| SRP017611_kidney | 0 .10 RPM | 4 .33 RPM |
| SRP017611_liver | 0 .20 RPM | 4 .45 RPM |
Felis catus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_fcat_810 retrocopy.
Felis catus was not studied using FANTOM5 data.
retro_fcat_810 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 | |
|---|---|---|---|
| Felis catus | ENSFCAG00000005830 | 1 retrocopy |
retro_fcat_810 ,
|
| Myotis lucifugus | ENSMLUG00000013863 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000031723 | 1 retrocopy |