RetrogeneDB ID: | retro_cjac_4099 | ||
Retrocopylocation | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | X:89349937..89350438(+) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | PI15 | ||
| Ensembl ID: | ENSCJAG00000000555 | ||
| Aliases: | None | ||
| Description: | peptidase inhibitor 15 [Source:HGNC Symbol;Acc:8946] |
Retrocopy-Parental alignment summary:
>retro_cjac_4099
GTTTGGGATGAAAATCTTGCAAAATCGGCAGAGGCGTGGGTGGCTACTTGCATTTGGGACCATGGACCTTCTTACTTATT
GAGATTTTGGGGCCAAAATCTATCTGTACACACTGGAAGATATTGCTCTATTCTCCAGTTGGTCAAGCCATGGTGTGATG
AAGTGAAAGATAATATTTTTCCATATCCCCAGGATTGCAACCCCAGATGTCCTATGAGATGTTTTGGTCCCATGTTCACA
CATTATAGGCAGATGGTTTGGGCCACTTCCAAGCTGATAGGATGTGCAATTCATACTTGCCAAAACATGAATATTTGGGG
ATCTGTCTGGTGACATGCAGTTTACTTGGTATGCAACTATGCCCCAAAGGGCAATTGGATTGTGGAAGCACCATATAAAG
TAGGGGTACCATGTTCATCTTGTCCTCCAAGTTATGGGGGATCTTGTACTGACAATCTGTGTTTTCCAGGAGTTATATCA
AACTACCTGTACTAGTTTAAA
GTTTGGGATGAAAATCTTGCAAAATCGGCAGAGGCGTGGGTGGCTACTTGCATTTGGGACCATGGACCTTCTTACTTATT
GAGATTTTGGGGCCAAAATCTATCTGTACACACTGGAAGATATTGCTCTATTCTCCAGTTGGTCAAGCCATGGTGTGATG
AAGTGAAAGATAATATTTTTCCATATCCCCAGGATTGCAACCCCAGATGTCCTATGAGATGTTTTGGTCCCATGTTCACA
CATTATAGGCAGATGGTTTGGGCCACTTCCAAGCTGATAGGATGTGCAATTCATACTTGCCAAAACATGAATATTTGGGG
ATCTGTCTGGTGACATGCAGTTTACTTGGTATGCAACTATGCCCCAAAGGGCAATTGGATTGTGGAAGCACCATATAAAG
TAGGGGTACCATGTTCATCTTGTCCTCCAAGTTATGGGGGATCTTGTACTGACAATCTGTGTTTTCCAGGAGTTATATCA
AACTACCTGTACTAGTTTAAA
ORF - retro_cjac_4099 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 89.82 % |
| Parental protein coverage: | 64.73 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | VWDENLAKSAEAWAATCIWDHGPSYLLRFLGQNLSVRTGRYRSILQLVKPWYDEVKDYAFPYPQDCNPRC |
| VWDENLAKSAEAW.ATCIWDHGPSYLLRF.GQNLSV.TGRY.SILQLVKPW.DEVKD..FPYPQDCNPRC | |
| Retrocopy | VWDENLAKSAEAWVATCIWDHGPSYLLRFWGQNLSVHTGRYCSILQLVKPWCDEVKDNIFPYPQDCNPRC |
| Parental | PMRCFGPMCTHYTQMVWATSNRIGCAIHTCQNMNVWGSVWRRAVYLVCNYAPKGNWIGEAPYKVGVPCSS |
| PMRCFGPM.THY.QMVWATS..IGCAIHTCQNMN.WGSVW..AVYLVCNYAPKGNWI.EAPYKVGVPCSS | |
| Retrocopy | PMRCFGPMFTHYRQMVWATSKLIGCAIHTCQNMNIWGSVW*HAVYLVCNYAPKGNWIVEAPYKVGVPCSS |
| Parental | CPPSYGGSCTDNLCFPGVTSNYLYWFK |
| CPPSYGGSCTDNLCFPGV.SNYLY.FK | |
| Retrocopy | CPPSYGGSCTDNLCFPGVISNYLY*FK |
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 .13 RPM | 3 .99 RPM |
| SRP051959_heart | 0 .00 RPM | 0 .74 RPM |
| SRP051959_kidney | 0 .00 RPM | 0 .18 RPM |
| SRP051959_liver | 0 .00 RPM | 0 .24 RPM |
| SRP051959_lung | 0 .00 RPM | 0 .16 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 0 .59 RPM |
| SRP051959_skeletal_muscle | 0 .00 RPM | 0 .09 RPM |
| SRP051959_spleen | 0 .00 RPM | 0 .42 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_4099 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_4099 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_4099 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 | ENSCJAG00000000555 | 1 retrocopy |
retro_cjac_4099 ,
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