RetrogeneDB ID: | retro_cjac_483 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 1:172233319..172233865(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MRI1 | ||
| Ensembl ID: | ENSCJAG00000004436 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cjac_483
ATGAAGCTGGAGGTGATCCACTACTCGAGGGGCTCCCTGCAGATCCTGGACCAGCTGCTGCTGCCCCAGCAAAGCCGCTA
CGAGGCGGTGGGCTCGGTGCGCCAAGCCTGGGAGGCAATCCGTGACATGAAGGTGCAGGGTGCCCCAGCCATCGCCCTAG
TAGGCTGCCTCAGCGTCGCCGTGGAGCTGCATATGGGCGCCGGGGGACCGGGACTTGCCGCACTGGTGGCCTTCGTGCAC
GACAAGGTGAGCTTCCTCGTCACTGCCGGGCCCACCGCTGTCAACATGGCCCACACTGCCTGCGACCTGGCTGATGCTGC
AGCTCGGGAGGCCGAGCAGGAGGGCGCTACAGAGGAGGCAGTCCAGGAGAGAGTGATCCATTGCACCAAGGACATGCTGG
AGAAAGACCTCAGAGACAACTGGAACATCGGGGATCTCGGAGCCCACCATCTCCTGGACTGGGTGGCCCCCAACGGTGGC
AAGGTGACTGTGCTGACCCACTGTAACACCGGTGCTCTGGCCACTGCTGGCTATGGCACAGCCCTA
ORF - retro_cjac_483 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 83.52 % |
| Parental protein coverage: | 50.98 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MTLKAIRYSRGSLQILNQLLLPQQTHYEAVGSVRQAWEAIRAMKVRGAPAIALVGCLSLAVELQTGAGGP |
| M.L..I.YSRGSLQIL.QLLLPQQ..YEAVGSVRQAWEAIR.MKV.GAPAIALVGCLS.AVEL..GAGGP | |
| Retrocopy | MKLEVIHYSRGSLQILDQLLLPQQSRYEAVGSVRQAWEAIRDMKVQGAPAIALVGCLSVAVELHMGAGGP |
| Parental | GLAALVAFVRDKLSFLVTARPTAVNMARAARDMADAAAREAEREGATEEAVRERVIRCAEDMLEKDLRDN |
| GLAALVAFV.DK.SFLVTA.PTAVNMA..A.D.ADAAAREAE.EGATEEAV.ERVI.C..DMLEKDLRDN | |
| Retrocopy | GLAALVAFVHDKVSFLVTAGPTAVNMAHTACDLADAAAREAEQEGATEEAVQERVIHCTKDMLEKDLRDN |
| Parental | ESIGDFGALFLLDQVAPNGGKVTVLTHCNTGALATAGYGTAL |
| ..IGD.GA..LLD.VAPNGGKVTVLTHCNTGALATAGYGTAL | |
| Retrocopy | WNIGDLGAHHLLDWVAPNGGKVTVLTHCNTGALATAGYGTAL |
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 .18 RPM | 1 .80 RPM |
| SRP051959_heart | 0 .23 RPM | 1 .63 RPM |
| SRP051959_kidney | 0 .18 RPM | 3 .95 RPM |
| SRP051959_liver | 0 .30 RPM | 3 .90 RPM |
| SRP051959_lung | 0 .16 RPM | 2 .91 RPM |
| SRP051959_lymph_node | 0 .11 RPM | 2 .56 RPM |
| SRP051959_skeletal_muscle | 0 .11 RPM | 2 .73 RPM |
| SRP051959_spleen | 0 .19 RPM | 2 .52 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_483 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_483 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_483 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000004436 | 1 retrocopy |
retro_cjac_483 ,
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