RetrogeneDB ID: | retro_cfam_66 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 35:1922628..1923258(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCAFG00000009200 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GPX8 | ||
| Ensembl ID: | ENSCAFG00000028869 | ||
| Aliases: | None | ||
| Description: | Canis lupus familiaris glutathione peroxidase 8 (putative) (GPX8), mRNA. [Source:RefSeq mRNA;Acc:NM_001252323] |
Retrocopy-Parental alignment summary:
>retro_cfam_66
ATGGAGCCTCTTACAGCTTACCCTTTAAGACGTTCAGGGTCAAAAGCAAAGGTATTTGCAGTTTTACTGTCTATGGTTCT
ATGCACAGTAATGCTATTTCTTCTACAACTAAAATTCCTAAAACCTAAAATCAACAGCTTTTATACCTTTGAAGTGAAAG
ATGCAAAAGGAAGAACAGTTTCTCTGGAAAAGTTTAAAGGCAAAGTTACACTAGTTGTAAACGTGGCCAGTGACTGCCAA
CTCAGAGACAGAAATTACTTAGCAGTGCAGGAACTGCACAAGGAGTTTGGACCATTCCACTTCAGCGTCCTGGCCTTCCC
ATGCAATCAGTTCGGAGAATCGGAGCCCTTCCCAAGCAAGGAAGTGGTGTCTTTTGCAAGAAATAACTATGGAGCGACAT
TCCCCATCTTCCACAAGATTAAGATCCTAGGATCTGAAGCGGACCCTGCATTTAGATTTCTTGTTGATTCTTCAAAGAAG
GAACCAAGGTGGAATTTTTGGAAGTATCTGGTCAACCCTGAGGAACAAGTTGTGAAGTCTTGGAGGCCAGAGGAACCCAT
TGAAGTCATCAGGCCTGAGATAGCAGCGCTGGTTACACAAATGATCCTAAGAAAGAAAGACGACCTATGA
ORF - retro_cfam_66 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 97.13 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MEPLTAYPLRCSGSKAKVFAVLLSMVLCTVMLFLLQLKFLKPKINSFYTFEVKDAKGRTVSLEKFKGKVT |
| MEPLTAYPLR.SGSKAKVFAVLLSMVLCTVMLFLLQLKFLKPKINSFYTFEVKDAKGRTVSLEKFKGKVT | |
| Retrocopy | MEPLTAYPLRRSGSKAKVFAVLLSMVLCTVMLFLLQLKFLKPKINSFYTFEVKDAKGRTVSLEKFKGKVT |
| Parental | LVVNVASDCQLTDRNYLALQELHKEFGPFHFSVLAFPCNQFGESEPRPSKEVVSFARNNYGATFPIFHKI |
| LVVNVASDCQL.DRNYLA.QELHKEFGPFHFSVLAFPCNQFGESEP.PSKEVVSFARNNYGATFPIFHKI | |
| Retrocopy | LVVNVASDCQLRDRNYLAVQELHKEFGPFHFSVLAFPCNQFGESEPFPSKEVVSFARNNYGATFPIFHKI |
| Parental | KILGSEADPAFRFLVDSSKKEPRWNFWKYLVNPEGQVVKSWRPEEPIEVIRPEIAALVRQMILRKKDDL |
| KILGSEADPAFRFLVDSSKKEPRWNFWKYLVNPE.QVVKSWRPEEPIEVIRPEIAALV.QMILRKKDDL | |
| Retrocopy | KILGSEADPAFRFLVDSSKKEPRWNFWKYLVNPEEQVVKSWRPEEPIEVIRPEIAALVTQMILRKKDDL |
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 .08 RPM | 11 .84 RPM |
| SRP017611_brain | 0 .00 RPM | 4 .13 RPM |
| SRP017611_kidney | 0 .00 RPM | 6 .01 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .44 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_66 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_66 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_66 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000028869 | 1 retrocopy |
retro_cfam_66 ,
|
| Rattus norvegicus | ENSRNOG00000010461 | 1 retrocopy | |
| Tarsius syrichta | ENSTSYG00000012413 | 2 retrocopies |