RetrogeneDB ID: | retro_cfam_1965 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 8:58301240..58301412(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSCAFG00000023205 | ||
| Aliases: | TMEM256, C5H17orf61 | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cfam_1965
ATGGCCAGGCCAGGGGTTGCTTTCTGCCACTTAAGTGTCTTGTCCAGAGCAGAAAGCCTTCTGCTTGGCCTGCTATAGAG
TGCATGGCACCCAGTTTCCAGATGTCTACAGGAAGGAGCTCTTTGACAAGACCAGCAAATACCTCTTCTTACATAGTCTG
GCTGTGTTAGGG
ORF - retro_cfam_1965 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 60.34 % |
| Parental protein coverage: | 50.44 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MAGFGAAFRRLGALSGAGAL-GLASYGAHGAQFPDAYGKELFDKTNRHHFLHSLALLG |
| MA..G.AF..L..LS.A..L..LA.Y..HG.QFPD.Y.KELFDKT....FLHSLA.LG | |
| Retrocopy | MARPGVAFCHLSVLSRAESL>CLACYRVHGTQFPDVYRKELFDKTSKYLFLHSLAVLG |
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 | 6 .59 RPM |
| SRP017611_brain | 0 .00 RPM | 3 .26 RPM |
| SRP017611_kidney | 0 .00 RPM | 48 .08 RPM |
| SRP017611_liver | 0 .00 RPM | 13 .56 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_1965 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_1965 was not experimentally validated.