RetrogeneDB ID: | retro_cjac_2724 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 6:51183573..51183933(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KRBOX1 | ||
| Ensembl ID: | ENSCJAG00000031316 | ||
| Aliases: | ZNF662, KRBOX1 | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cjac_2724
ATGACAACTGTGTCCTCAACAGCCAGGCCCCAGGAATCAGTGGCTGTTGAGGACATGGCTGTGTACTTCACTAAGAAGGA
ATGGGCCATTATGGTGCCTAATCAGAGGGCCTTGTACAGGGATGTGATGCTGAAGAACCATGAGGCTGTGGCCTTTGAAG
TACCACCCACTTCCAAACCAGCTTTGGTCTCTCATCTGGAGCAAGGGAAAGAGCCCTGTTTCACCCAACCACAGGGAGTC
CTAAGCAGGAGGGACTAGAGAGCAGCCTTTATAGAATACTTGGAACTGAGAAGATATACTTACTGAGCTAAAGCAATGTT
ACTTTTAATAAAATCAAAACTTCTCCAAAATCATCAATGC
ORF - retro_cjac_2724 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 84.17 % |
| Parental protein coverage: | 94.49 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MTTVSSTARPQESVAFDDVAVYFTKKEWAIMVPDQRALYRDVMLENYEAVAFVVPPTSKPALISHLEQGK |
| MTTVSSTARPQESVA..D.AVYFTKKEWAIMVP.QRALYRDVML.N.EAVAF.VPPTSKPAL.SHLEQGK | |
| Retrocopy | MTTVSSTARPQESVAVEDMAVYFTKKEWAIMVPNQRALYRDVMLKNHEAVAFEVPPTSKPALVSHLEQGK |
| Parental | EPCFTQPQGVLSRRDWRAGFIGHSELRRYTYLAKAMLYVIKSKILQNRRC |
| EPCFTQPQGVLSRRD.RA.FI...ELRRYTY.AKAML..IKSK.LQN..C | |
| Retrocopy | EPCFTQPQGVLSRRD*RAAFIEYLELRRYTY*AKAMLLLIKSKLLQNHQC |
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 .02 RPM | 3 .11 RPM |
| SRP051959_heart | 0 .00 RPM | 3 .53 RPM |
| SRP051959_kidney | 0 .02 RPM | 6 .88 RPM |
| SRP051959_liver | 0 .02 RPM | 7 .67 RPM |
| SRP051959_lung | 0 .05 RPM | 2 .38 RPM |
| SRP051959_lymph_node | 0 .05 RPM | 0 .80 RPM |
| SRP051959_skeletal_muscle | 0 .00 RPM | 9 .19 RPM |
| SRP051959_spleen | 0 .02 RPM | 1 .37 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_2724 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_2724 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_2724 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000031316 | 3 retrocopies |
retro_cjac_2150, retro_cjac_2724 , retro_cjac_2790,
|