RetrogeneDB ID: | retro_cjac_192 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | X:60571876..60572410(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCJAG00000023045 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSCJAG00000004753 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cjac_192
ATGGCCACTAACTACAGTGCCAACCAGTATGAAAAGGCTTTCTCATCCAAGTATCTGCAGAACTGGTCTCCCACTAAGCC
AACAAAAGAGTATATCTCTTCCCATGAAGGCTACACTCAAATTATTGCCAATGATCGTGGTCATCTACTGCCTTCTGTGC
CCCGTTCCAAGGCAAATCCTTGGGGTTCCTTCATGGGCACCTGGCAAATGCCTCTGAAGATACCCCCTGCTCGGGTGACA
CTGACTTCCCGTACAACTGCTGGTGCTGCCTCCCTTACCAAATGGATACAGAAAAATCCTGATTTACTCAAGGCCTCCAA
TGGGCTGCGTCCTGAAATCTTAGGCAAGTCCCATGATCCAGACAGTCAGAAGACATTCAGGAAGAAGTCTATCACAAAGA
CTGTACAACAAGCACCAAGTCCAACCGTAATTCCACGCTCCCCAGCTGCCAACCTCAATTCCCCAGATGAACTCCAAAGC
TCACACCCCTCTGCAGGTCATACTCCAGGTCCCCAAAGCCCAGCAAAATCCTAA
ORF - retro_cjac_192 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.87 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MATNYSANQYEKAFSSKYLQNWSPAKPTKESISSHEGYTQIIANDRGHLLPSVPRSKANPWGSFMGTWQM |
| MATNYSANQYEKAFSSKYLQNWSP.KPTKE.ISSHEGYTQIIANDRGHLLPSVPRSKANPWGSFMGTWQM | |
| Retrocopy | MATNYSANQYEKAFSSKYLQNWSPTKPTKEYISSHEGYTQIIANDRGHLLPSVPRSKANPWGSFMGTWQM |
| Parental | PLKIPPARVTLTSRTTAGAASLTKWIQKNPDLLKASNGLRPEILGKSHDPDSQKTFRKKSITKTVQQAPS |
| PLKIPPARVTLTSRTTAGAASLTKWIQKNPDLLKASNGLRPEILGKSHDPDSQKTFRKKSITKTVQQAPS | |
| Retrocopy | PLKIPPARVTLTSRTTAGAASLTKWIQKNPDLLKASNGLRPEILGKSHDPDSQKTFRKKSITKTVQQAPS |
| Parental | PTVIPRSPAANLNSPDELQSSHPSAGHTPGPQSPAKS |
| PTVIPRSPAANLNSPDELQSSHPSAGHTPGPQSPAKS | |
| Retrocopy | PTVIPRSPAANLNSPDELQSSHPSAGHTPGPQSPAKS |
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 | 1 .97 RPM |
| SRP051959_heart | 0 .00 RPM | 2 .56 RPM |
| SRP051959_kidney | 0 .00 RPM | 1 .80 RPM |
| SRP051959_liver | 0 .00 RPM | 1 .34 RPM |
| SRP051959_lung | 0 .05 RPM | 1 .97 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 1 .35 RPM |
| SRP051959_skeletal_muscle | 0 .00 RPM | 2 .40 RPM |
| SRP051959_spleen | 0 .00 RPM | 1 .60 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_192 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_192 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_192 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 | ENSCJAG00000004753 | 1 retrocopy |
retro_cjac_192 ,
|
| Echinops telfairi | ENSETEG00000011522 | 1 retrocopy | |
| Tupaia belangeri | ENSTBEG00000015510 | 1 retrocopy |