RetrogeneDB ID: | retro_cjac_448 | ||
Retrocopylocation | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 1:92428374..92428807(+) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSCJAG00000003896 | ||
| Aliases: | None | ||
| Description: | Glutathione peroxidase [Source:UniProtKB/TrEMBL;Acc:F6T6G6] |
Retrocopy-Parental alignment summary:
>retro_cjac_448
ATGAACGAGCTGCAGCGGTGCCTCGGGCCCGGGCCTTGTGGTGCTCGGCTTCCCGTCCAACCAGTTTGGACATCAGGAGA
ACGCGAAGAACGAAGAGATTTTGAATTTCCTCAAGTACGTCCGACCTGGTGGTGGGTTCGAGCCCAACTTCATGCTCTTC
GAGAAGTGCGAGGTGAATGGTGCGGGGTCGTACCCTCTCTTCGCCTTCCTTCGGGAGGCCCTGCCAGCACCCAGCGACGA
TGCCACTGAGCTCATGACAGACCCCAAGCTCATCATTTGGTCTCTGGTATGCCAAAATGATGTTGCATGGAACTTTGATA
AGCTCCTGGTGGGCCCTGACAGTGTTCCTGTGAGCAGGTACAGACGCCGCTTCCAGACCATTGACATCGAGCCTGACATC
GAAGCCCTGCTGTCCCAAGGGCCCAGCTGTGCC
ATGAACGAGCTGCAGCGGTGCCTCGGGCCCGGGCCTTGTGGTGCTCGGCTTCCCGTCCAACCAGTTTGGACATCAGGAGA
ACGCGAAGAACGAAGAGATTTTGAATTTCCTCAAGTACGTCCGACCTGGTGGTGGGTTCGAGCCCAACTTCATGCTCTTC
GAGAAGTGCGAGGTGAATGGTGCGGGGTCGTACCCTCTCTTCGCCTTCCTTCGGGAGGCCCTGCCAGCACCCAGCGACGA
TGCCACTGAGCTCATGACAGACCCCAAGCTCATCATTTGGTCTCTGGTATGCCAAAATGATGTTGCATGGAACTTTGATA
AGCTCCTGGTGGGCCCTGACAGTGTTCCTGTGAGCAGGTACAGACGCCGCTTCCAGACCATTGACATCGAGCCTGACATC
GAAGCCCTGCTGTCCCAAGGGCCCAGCTGTGCC
ORF - retro_cjac_448 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 88.36 % |
| Parental protein coverage: | 100. % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MNELQRRL-GPRGLVVLGFPCNQFGHQENAKNEEILNSLKYVRPGGGFEPNFMLFEKCEVNSAGSHPLFA |
| MNELQR.L.GP.GLVVLGFP.NQFGHQENAKNEEILN.LKYVRPGGGFEPNFMLFEKCEVN.AGS.PLFA | |
| Retrocopy | MNELQRCL>GP-GLVVLGFPSNQFGHQENAKNEEILNFLKYVRPGGGFEPNFMLFEKCEVNGAGSYPLFA |
| Parental | FLREALPAPSDDATALMTDPKLITWSPVCRNDVAWNFEKFLVGPDGIPVRRYSRRFQTIDIEPDIEALLS |
| FLREALPAPSDDAT.LMTDPKLI.WS.VC.NDVAWNF.K.LVGPD..PV.RY.RRFQTIDIEPDIEALLS | |
| Retrocopy | FLREALPAPSDDATELMTDPKLIIWSLVCQNDVAWNFDKLLVGPDSVPVSRYRRRFQTIDIEPDIEALLS |
| Parental | QGPSCA |
| QGPSCA | |
| Retrocopy | QGPSCA |
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 | 18 .88 RPM |
| SRP051959_heart | 0 .00 RPM | 18 .19 RPM |
| SRP051959_kidney | 0 .00 RPM | 27 .11 RPM |
| SRP051959_liver | 0 .00 RPM | 33 .79 RPM |
| SRP051959_lung | 0 .02 RPM | 11 .63 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 11 .67 RPM |
| SRP051959_skeletal_muscle | 0 .00 RPM | 14 .00 RPM |
| SRP051959_spleen | 0 .02 RPM | 16 .30 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_448 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_448 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_448 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000003896 | 6 retrocopies |