RetrogeneDB ID: | retro_cfam_1099 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 23:19071635..19072028(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | AKIRIN1 | ||
| Ensembl ID: | ENSCAFG00000003186 | ||
| Aliases: | None | ||
| Description: | akirin 1 [Source:HGNC Symbol;Acc:25744] |
Retrocopy-Parental alignment summary:
>retro_cfam_1099
GCCCTGCCCGGCAGTGAGCGGCGCCTTCCAACCCCGGAACAAATCTTTCAGAACATAAAACAAGAATACAGTTGTTAGCA
GAGGTGGAGACATTTAGAAGTTGTTCTTAATCAGAGTGAAGCTTGTACTTCAGAAAGTCAGCCTCATTCCTCAGCACTCA
CAGCACCCAGTTCTCCAGGTTCCTCCCGGATGAAGAAGGACCAGCCCACCTTTACCCTCCGACAAGTTGGAATAACATGT
GAGCGTCTCTTAAAAGACTATGAAGATAAAATTCCGGAGGAGTATGAGCAAATATTCAATACCAAACTAGCAGAACGATA
TGAATCTTTTGTGAAATTCACACATGATCAGATTATGCGACAGTATGGGACAAGGCCAACAAGCTATGTGTCC
ORF - retro_cfam_1099 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 90.84 % |
| Parental protein coverage: | 68.23 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | APPGSEGRLKTIEQIFQNIKQEYSRYQRWRHLEVVLNQSEACTSESQPHSSALTAPSSPGSSWMKKDQPT |
| A.PGSE.RL.T.EQIFQNIKQEYS..QRWRHLEVVLNQSEACTSESQPHSSALTAPSSPGSS.MKKDQPT | |
| Retrocopy | ALPGSERRLPTPEQIFQNIKQEYSC*QRWRHLEVVLNQSEACTSESQPHSSALTAPSSPGSSRMKKDQPT |
| Parental | FTLRQVGIICERLLKDYEDKIREEYEQILNTKLAEQYESFVKFTHDQIMRRYGTRPTSYVS |
| FTLRQVGI.CERLLKDYEDKI.EEYEQI.NTKLAE.YESFVKFTHDQIMR.YGTRPTSYVS | |
| Retrocopy | FTLRQVGITCERLLKDYEDKIPEEYEQIFNTKLAERYESFVKFTHDQIMRQYGTRPTSYVS |
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 .25 RPM | 11 .47 RPM |
| SRP017611_brain | 0 .08 RPM | 12 .15 RPM |
| SRP017611_kidney | 0 .07 RPM | 9 .51 RPM |
| SRP017611_liver | 0 .00 RPM | 4 .79 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_1099 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_1099 was not experimentally validated.