RetrogeneDB ID: | retro_cfam_109 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 3:35446933..35447539(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCAFG00000030210 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSCAFG00000028898 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cfam_109
ATGAAAGAAAGAAAAAAGAAACAAGGGAGGAAGGGAGGAAGGGAGGAAGGGAGGAAGGAAGGAAAAAGAAGGAAAGAAAA
GAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAGAGAGAGAGAGAGAGAGAGAAAGAAAG
AAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAGAAAGAAAGAGGAAGGAAGGAAGGAAGGAA
GGAAGGAGAAAAAGGAAAGAAAGAAAAAGAAAGAAAGAAAGAAAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGA
AGGAAGGAAGGAAGGAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAAGA
AAAGAAGAAAGAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAAGGAGAAAAAGGAAAGAAAGAAAGA
AAGAAAGAGAAAGAGAAAGAGAGAGAGGGAGGGAAAAAAAAGCAAGCAAGCAGAATACAAGATTATCATATAAAAATTAC
TTATATTTTATATACTAGCAATGAGCAATCCAAAAATGAAATTTAG
ORF - retro_cfam_109 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 56.11 % |
| Parental protein coverage: | 94.15 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | RKRKKERKKERKKERKK-ERKKERKKERKKERKKERKKERKEGRKEGRKKERKKRKEERKKERKKKERKK |
| RK.K..RK..R...RK...R.KE.KKERKKERKKERKKERK..R...RKKERKK...ERKKERKK...K. | |
| Retrocopy | RKKKQGRKGGREEGRKEGKRRKEKKKERKKERKKERKKERKRERERERKKERKK---ERKKERKKERKKE |
| Parental | ERKKERKKKLKRKKKKERKKERKKERKKERKKERKKKERRKKEKKERKERKREKKERKKERKKERKKERK |
| ERK.....K..R.K.KERK........KE..KE..K..R....KKERK..K..KKERKKERKKE.K.... | |
| Retrocopy | ERKRKEGRKEGRRKRKERKRKKERKGRKEGRKEGRKEGRKEGRKKERK--KERKKERKKERKKEKKRRKR |
| Parental | KERKKERKKE--RKGKKGKKERKKERKKERKKERKKEKKR |
| KE..KE..KE....G.KGKKERKKE..KER....KK...R | |
| Retrocopy | KEGRKEGRKEGRKEGEKGKKERKKEKEKEREGGKKKQASR |
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 |
|---|---|---|
| SRP012049_cerebellum | 0 .29 RPM | 0 .00 RPM |
| SRP017611_brain | 0 .16 RPM | 0 .00 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_109 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_109 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_109 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000028898 | 2 retrocopies |
retro_cfam_105, retro_cfam_109 ,
|