RetrogeneDB ID: | retro_cjac_326 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 14:27933071..27933731(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCJAG00000031515 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSCJAG00000009866 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cjac_326
ATGCCTGCCAGCATGTTCAGCATCGACAACATCCTGGCCGCCCAGCCGCGCTGCAAGGACTCGGTGCTGCCGGTGGCTCC
CAGCGCGACGGCTCTGGTCGTCTTCCCGGCCCTGCACGGGGATTCGCTCTACGGCGCCAGCGGCGGCGCCTCCTCGGACT
ATGGCACCTTCTACGGGCAGCTGCACGTGCAGGCAGCTCCCATGGGTCCGGCCTGCTGTGGGGCCGTGTCGCCCCTGGGT
GCCCAGCAGTGCTCCTGCGTCCCGACGCCCCCAGGCTATGAGAGCCCTGGCTCGGTGCTGGTGTCCCCGGTACCGCATCA
GATGCTGACCTACATGAACATGGGCATGCTGTCGCGCACCGAGTTGCAGCTTCTCAACCAGCTGCACTGCCGGCAGAAGC
GGTGGCACCGCACCATCTTCACTGACGAGCAGCTCGAAGCGCTTGAGAACCTCTTCCAGGAGACCAAGTACCCGGACGTG
GGCACGCGCGAGCAGCTGGCCGGGAAAGTACACCTCCCGGAGGAGAAAGTGGAGGTCTGGTTTAAGAACCCCCGCGCCAA
ATGGAGGCGGCAGAAGCGGTCTTCATCGGAGGAGTCCGAGAACGTGGAGAAGTGGAACAAGACGTCGTCCTCGAAGGCAT
CGCCGGAGAAAAGGAAATAG
ORF - retro_cjac_326 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 86.74 % |
| Parental protein coverage: | 70.43 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | GAGLQAAVGGSRLGYNNYFYGQLHVQAAPVGPACCGAVPPLGAQQCSCVPTPPGYEGPGSVLVSPVPHQM |
| G..L..A.GG....Y...FYGQLHVQAAP.GPACCGAV.PLGAQQCSCVPTPPGYE.PGSVLVSPVPHQM | |
| Retrocopy | GDSLYGASGGASSDYGT-FYGQLHVQAAPMGPACCGAVSPLGAQQCSCVPTPPGYESPGSVLVSPVPHQM |
| Parental | LPYMNVGTLSRTELQLLNQLHCRRKRRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVE |
| L.YMN.G.LSRTELQLLNQLHCR.KR.HRTIFTDEQLEALENLFQETKYPDVGTREQLA.KVHL.EEKVE | |
| Retrocopy | LTYMNMGMLSRTELQLLNQLHCRQKRWHRTIFTDEQLEALENLFQETKYPDVGTREQLAGKVHLPEEKVE |
| Parental | VWFKNRRAKWRRQKRSSSEESENVEKWNKTSSSKASPEKRE |
| VWFKN.RAKWRRQKRSSSEESENVEKWNKTSSSKASPEKR. | |
| Retrocopy | VWFKNPRAKWRRQKRSSSEESENVEKWNKTSSSKASPEKRK |
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 .09 RPM |
| SRP051959_heart | 0 .00 RPM | 0 .04 RPM |
| SRP051959_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP051959_liver | 0 .00 RPM | 0 .00 RPM |
| SRP051959_lung | 0 .00 RPM | 0 .00 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 0 .00 RPM |
| SRP051959_skeletal_muscle | 0 .00 RPM | 0 .00 RPM |
| SRP051959_spleen | 0 .00 RPM | 0 .04 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_326 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_326 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_326 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000009866 | 1 retrocopy |
retro_cjac_326 ,
|
| Callithrix jacchus | ENSCJAG00000010981 | 1 retrocopy | |
| Callithrix jacchus | ENSCJAG00000018583 | 1 retrocopy |