RetrogeneDB ID: | retro_ocun_911 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 17:42594753..42595332(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GLT8D1 | ||
| Ensembl ID: | ENSOCUG00000009849 | ||
| Aliases: | None | ||
| Description: | glycosyltransferase 8 domain containing 1 [Source:HGNC Symbol;Acc:24870] |
Retrocopy-Parental alignment summary:
>retro_ocun_911
GATATTCTTGCCCTTTACAATACACCACTGAAGCCAGGGCATGCAACTGCATTTTCAGAAGACTGTGATTCAACGTCTGC
TAAAGTTGTTATCCGTGGAGCAGGGAATCAGTACAACTACATTGGCTATCTTGACTATAAAAAGGAAAGAATTCGTAAGT
TATCCATGAAAGCCAGCACCTGCTCATTTAATCCTGGAGTTTTTGTTGCAAACATGACAGAATGGAAGTGACAAAACATA
ACTAGCCAGCTGGAGAAATGGATGAGACTCAATGCAGAAGAGGGACTGTACAGCAGAACATTGGCTGGCAGCATCACGAC
ACCGCCTCTGCTCATCGTGTTTTATCAACAGCACTCCACTATCGACCCTATGTGGAATGTCCGCTACCTTGGTTCCAGTG
CTGGAAAACGATATTCACCCCAGTTTATAAAGGCTGCCAAGTTACTCCACTGGAATGGACACTTTAAGCCGTGGGGAAGA
ACCGCTTCATACACTGATGTTTGGGAAAAATGGTGTGTTCCAGATCCAACAGGCAAGTTCAGCTTAATCCGAAGACATAT
GGAGATCTCAAACATAAAG
ORF - retro_ocun_911 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 97.93 % |
| Parental protein coverage: | 52.73 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | DILALYNTPLKPGHAAAFSEDCDSTSAKVVIRGAGNQYNYIGYLDYKKERIRKLSMKASTCSFNPGVFVA |
| DILALYNTPLKPGHA.AFSEDCDSTSAKVVIRGAGNQYNYIGYLDYKKERIRKLSMKASTCSFNPGVFVA | |
| Retrocopy | DILALYNTPLKPGHATAFSEDCDSTSAKVVIRGAGNQYNYIGYLDYKKERIRKLSMKASTCSFNPGVFVA |
| Parental | NMTEWKRQNITSQLEKWMRLNAEEGLYSRTLAGSITTPPLLIVFYQQHSTIDPMWNVRHLGSSAGKRYSP |
| NMTEWK.QNITSQLEKWMRLNAEEGLYSRTLAGSITTPPLLIVFYQQHSTIDPMWNVR.LGSSAGKRYSP | |
| Retrocopy | NMTEWK*QNITSQLEKWMRLNAEEGLYSRTLAGSITTPPLLIVFYQQHSTIDPMWNVRYLGSSAGKRYSP |
| Parental | QFIKAAKLLHWNGHFKPWGRTASYTDVWEKWYVPDPTGKFSLIRRHMEISNIK |
| QFIKAAKLLHWNGHFKPWGRTASYTDVWEKW.VPDPTGKFSLIRRHMEISNIK | |
| Retrocopy | QFIKAAKLLHWNGHFKPWGRTASYTDVWEKWCVPDPTGKFSLIRRHMEISNIK |
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 .17 RPM | 22 .35 RPM |
| SRP017611_kidney | 0 .00 RPM | 19 .16 RPM |
| SRP017611_liver | 0 .00 RPM | 7 .94 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_911 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_911 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_911 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 | ENSOCUG00000009849 | 1 retrocopy |
retro_ocun_911 ,
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