RetrogeneDB ID: | retro_cfam_2149 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | X:40078039..40078471(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCAFG00000028920 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FXYD5 | ||
| Ensembl ID: | ENSCAFG00000024320 | ||
| Aliases: | None | ||
| Description: | FXYD domain containing ion transport regulator 5 [Source:HGNC Symbol;Acc:4029] |
Retrocopy-Parental alignment summary:
>retro_cfam_2149
ACCCCACCAGTCCCAGACACAGTCCACCGCGAACCCCAGTCCACACCTCGGATGGGCCTGCAGACTGGTGGAACAACATG
GGAGCAGATGGAGGGGACCCAGACCCCACAACTCCCGGAAGCGTCTGAGCTTCTAGCAGCAGATCGGGCGATGGCAACGA
TGACAACGGGCAAGAGCAGCCTGAGAGCAACTCCTCCTGAACCCACCAAAGGCACCACGCTCTCCAAGAGACAGTCTCCA
GGCAGAGACATCAGGCGGGACCCCCCACTCAGGCCAACTGGTTCCAGCGAAGACGACCCCTTCTCCTACGACGAGGACAC
TCTCCGGAAGCGGGGGCTACTGGTCACAGCTGTGCTGTTCATCACAGGCATTGTCATCCTCACGAGTGGCAAATGTAGGT
GGTTACCCCAGTTATGTCGGAATTATAACAGG
ORF - retro_cfam_2149 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 95.17 % |
| Parental protein coverage: | 65.91 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | TPPVPDTVHREPQSTPRMGLQTGGTTWEQMEGTQTPQPPEASELLAADRAMVTMTTGKSSLRATPSPEPT |
| TPPVPDTVHREPQSTPRMGLQTGGTTWEQMEGTQTPQ.PEASELLAADRAM.TMTTGKSSLRATP.PEPT | |
| Retrocopy | TPPVPDTVHREPQSTPRMGLQTGGTTWEQMEGTQTPQLPEASELLAADRAMATMTTGKSSLRATP-PEPT |
| Parental | KGTTPSKRQSPGRDIRRDPPLGPTGSSEDDPFSYDEDTLRKRGLLVAAVLFITGIVILTSGKCRRLPQLC |
| KGTT.SKRQSPGRDIRRDPPL.PTGSSEDDPFSYDEDTLRKRGLLV.AVLFITGIVILTSGKCR.LPQLC | |
| Retrocopy | KGTTLSKRQSPGRDIRRDPPLRPTGSSEDDPFSYDEDTLRKRGLLVTAVLFITGIVILTSGKCRWLPQLC |
| Parental | RNYNR |
| RNYNR | |
| Retrocopy | RNYNR |
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 .00 RPM | 3 .02 RPM |
| SRP017611_brain | 0 .00 RPM | 3 .81 RPM |
| SRP017611_kidney | 0 .00 RPM | 2 .97 RPM |
| SRP017611_liver | 0 .00 RPM | 1 .89 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_2149 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_2149 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_2149 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000024320 | 1 retrocopy |
retro_cfam_2149 ,
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