RetrogeneDB ID: | retro_ocun_268 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 17:41447000..41447576(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSOCUG00000025483 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSOCUG00000014926 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ocun_268
ATGGGGGGCTCGGGCAGCCGCCTGTCCAAGGAGCTGCTGGCCGAGTACCAGGATTTGACATTCCTGACGAAGCAGGAGAT
CCTCCTAGCCCACAGGCGGTTTTGTGAGCTGCTGCCGCAGGAGCACCGGAGCGTGGAGGAGTCCCTACGCGCACGGGTGT
CCTTTGAGCAGATCCTCAGCCTTCCGGAGCTCAAGGCCAACCCCTTCAAGGAGCGGATCTGCAGGGTCTTCTCCACGTCC
CCAACCAGAGACAGCCTGAGCTTCGAGGACTTCCTGGACCTGCTCAGCGTGTTCAGTGACAACGCAACCCCAGACATCAA
GTCCCACTACGCCTTCTGCATCTTCGACTTTGACGATGACGGAACCTTGGACAGGGAAGACCTGAGCCGCCTGGTCAACT
GCCTCACGGGCGAGGGCGAGGACACGCGGCTCAGCGCTTCCGAAATGAAGCAGCTCATCGACAACATCTTGGAGGAGTCC
GACATCGACCGGGACGGCACCATCAACCTGTCAGAGTTCCAGCACGTCATCTCACGCTCACCAGACTTTGCCAGCTCCTT
CAAGATTGTCCTGTGA
ORF - retro_ocun_268 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 95.81 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MGGSGSRLSKELLAEYQDLTFLTKQEILLAHRRFCELLPQEHRSVEESLRARVSFRSS-AFPELKANPFK |
| MGGSGSRLSKELLAEYQDLTFLTKQEILLAHRRFCELLPQEHRSVEESLRARVSF......PELKANPFK | |
| Retrocopy | MGGSGSRLSKELLAEYQDLTFLTKQEILLAHRRFCELLPQEHRSVEESLRARVSFEQILSLPELKANPFK |
| Parental | ERICRVFSTSPTRDSLSFEDFLDLLSVFSDTATPDIKSHYAFRIFDFDDDGTLDREDLSRLVNCLTGEGE |
| ERICRVFSTSPTRDSLSFEDFLDLLSVFSD.ATPDIKSHYAF.IFDFDDDGTLDREDLSRLVNCLTGEGE | |
| Retrocopy | ERICRVFSTSPTRDSLSFEDFLDLLSVFSDNATPDIKSHYAFCIFDFDDDGTLDREDLSRLVNCLTGEGE |
| Parental | DTRLSASEMKQLIDNILEESDIDRDGTINLSEFQHVISRSPDFASSFKIVL |
| DTRLSASEMKQLIDNILEESDIDRDGTINLSEFQHVISRSPDFASSFKIVL | |
| Retrocopy | DTRLSASEMKQLIDNILEESDIDRDGTINLSEFQHVISRSPDFASSFKIVL |
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 |
|---|---|---|
| SRP017611_brain | 1 .32 RPM | 5 .08 RPM |
| SRP017611_kidney | 9 .83 RPM | 32 .94 RPM |
| SRP017611_liver | 2 .54 RPM | 8 .02 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_268 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_268 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_268 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 | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000014926 | 1 retrocopy |
retro_ocun_268 ,
|