RetrogeneDB ID: | retro_cfam_1372 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 3:32485194..32485452(-) | ||
| Located in intron of: | ENSCAFG00000009908 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ATP5D | ||
| Ensembl ID: | ENSCAFG00000019536 | ||
| Aliases: | None | ||
| Description: | ATP synthase, H+ transporting, mitochondrial F1 complex, delta subunit [Source:HGNC Symbol;Acc:837] |
Retrocopy-Parental alignment summary:
>retro_cfam_1372
GGGCTGGTGGTTGTCCACGCCGAGGACGGCACCATCTCCAAATACTTCGTGAGCAGTGGCTCAGTCATGGTGAACGCTGA
TTCCTCAGTGCAGTTGCTGGCTGAAGAGGCTGTGACACTAGACATGCTGGACGTGGGGGCAGCCAAGATGAATCTGGAGA
AGGCGCATTCGGAGCTGTCAGGGGCAGCGAAAGAGGCTTCCAGGGCTGAGATCCAAATCCGCATCGAGGCCAATGAGTCC
CTGGTGAAAGCTCTCGAG
ORF - retro_cfam_1372 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 95.35 % |
| Parental protein coverage: | 51.19 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | GLVVVHAEDGTISKYFVSSGSVTVNADSSVQLLAEEAVTLDMLDVGAAKMNLEKAQSELSGAADEASRAE |
| GLVVVHAEDGTISKYFVSSGSV.VNADSSVQLLAEEAVTLDMLDVGAAKMNLEKA.SELSGAA.EASRAE | |
| Retrocopy | GLVVVHAEDGTISKYFVSSGSVMVNADSSVQLLAEEAVTLDMLDVGAAKMNLEKAHSELSGAAKEASRAE |
| Parental | IQIRIEANEALVKALE |
| IQIRIEANE.LVKALE | |
| Retrocopy | IQIRIEANESLVKALE |
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 | 169 .21 RPM |
| SRP017611_brain | 0 .16 RPM | 94 .00 RPM |
| SRP017611_kidney | 0 .13 RPM | 254 .38 RPM |
| SRP017611_liver | 0 .00 RPM | 89 .99 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_1372 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_1372 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_1372 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Anolis carolinensis | ENSACAG00000002168 | 1 retrocopy | |
| Canis familiaris | ENSCAFG00000019536 | 1 retrocopy |
retro_cfam_1372 ,
|
| Myotis lucifugus | ENSMLUG00000015004 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000005314 | 1 retrocopy |