RetrogeneDB ID: | retro_cjac_3046 | ||
Retrocopylocation | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 8:11762011..11762171(+) | ||
| Located in intron of: | ENSCJAG00000008079 | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSCJAG00000031137 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cjac_3046
ACACACCTCCACACGCTCACTCACACATTCGCCCAATATACACGCACATGTATGCACAACCCCACCCATATGGCTCACAG
CCCCCATGTGCAAACACCCACACACACGCACACATGTGCACATGCTCACGTTTCACAGCCACACTCATGAACACACACAC
ACACACCTCCACACGCTCACTCACACATTCGCCCAATATACACGCACATGTATGCACAACCCCACCCATATGGCTCACAG
CCCCCATGTGCAAACACCCACACACACGCACACATGTGCACATGCTCACGTTTCACAGCCACACTCATGAACACACACAC
ORF - retro_cjac_3046 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 50.91 % |
| Parental protein coverage: | 81.82 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | THTHTHTHTYFTYRFTHTHTHTHTHAHTHEMVTPTHTHTHTHTHT-RLCTHAHTH |
| TH.HT.THT...Y..T..H..TH..AH.....TPTHTHT..H.H.....TH.HTH | |
| Retrocopy | THLHTLTHTFAQYTRTCMHNPTHM-AHSPHVQTPTHTHTCAHAHV>HSHTHEHTH |
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 |
|---|---|---|
| SRP051959_colon | 0 .00 RPM | 0 .02 RPM |
| SRP051959_heart | 0 .04 RPM | 0 .23 RPM |
| SRP051959_kidney | 0 .02 RPM | 0 .09 RPM |
| SRP051959_liver | 0 .00 RPM | 0 .02 RPM |
| SRP051959_lung | 0 .00 RPM | 0 .44 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 0 .00 RPM |
| SRP051959_skeletal_muscle | 0 .02 RPM | 0 .02 RPM |
| SRP051959_spleen | 0 .00 RPM | 0 .17 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_3046 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_3046 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_3046 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000031137 | 4 retrocopies |