RetrogeneDB ID: | retro_ocun_403 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 1:149560428..149560776(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | UBE2T | ||
| Ensembl ID: | ENSOCUG00000010249 | ||
| Aliases: | None | ||
| Description: | ubiquitin-conjugating enzyme E2T (putative) [Source:HGNC Symbol;Acc:25009] |
Retrocopy-Parental alignment summary:
>retro_ocun_403
CCCCAGGCATCATGTGCTGGCAAGAAAAAGATGATGTGTGAGCTCTGTTTGCTCCTAGGAATACTAAGTGGATCTAACAC
ACCTTATGAGAAGTGTGTTTTCAAGCAGGAAGTCATTATTCCTGAGAGGTACCCATTTAATCCTCCTCAGATCTAATTTC
TTACTCCAATCTATCATCCAAACATTGATTCTGCTCCCAGAATTTGTTTAGATGTTTTCAAATTGCCACCAAAATGTGTC
TGGAAACCATCCCTTAACATTGCAACTGTATTGACCTCTATTCAGCTGCTCATGTCAGAACCTAACCCTGATGACTTGCT
AAAGGCTGACATTTCCTCAAAATTTAAA
ORF - retro_ocun_403 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.86 % |
| Parental protein coverage: | 57.87 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | PGITCWQEKDQMDDL--RAQILGGSNTPYEKGVFKLEVIIPERYPFEPPQIRFLTPIYHPNIDSAGRICL |
| P...C...K..M..L.....IL.GSNTPYEK.VFK.EVIIPERYPF.PPQI.FLTPIYHPNIDSA.RICL | |
| Retrocopy | PQASCAGKKKMMCELCLLLGILSGSNTPYEKCVFKQEVIIPERYPFNPPQI*FLTPIYHPNIDSAPRICL |
| Parental | DVLKLPPKGAWRPSLNIATVLTSIQLLMSEPNPDDPLMADISSEFK |
| DV.KLPPK..W.PSLNIATVLTSIQLLMSEPNPDD.L.ADISS.FK | |
| Retrocopy | DVFKLPPKCVWKPSLNIATVLTSIQLLMSEPNPDDLLKADISSKFK |
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 | 0 .00 RPM | 0 .22 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .15 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_403 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_403 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_403 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 9 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000010249 | 3 retrocopies |
retro_ocun_402, retro_ocun_403 , retro_ocun_910,
|
| Oryctolagus cuniculus | ENSOCUG00000011287 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000029029 | 1 retrocopy | |
| Tarsius syrichta | ENSTSYG00000001704 | 4 retrocopies |