RetrogeneDB ID: | retro_ocun_336 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 1:10034272..10034698(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C2orf47 | ||
| Ensembl ID: | ENSOCUG00000017946 | ||
| Aliases: | None | ||
| Description: | chromosome 2 open reading frame 47 [Source:HGNC Symbol;Acc:26198] |
Retrocopy-Parental alignment summary:
>retro_ocun_336
GAGGCTTTTGCTTATGTATCCAAGTTGCTGTCACAGAGTAAATTTGATCTTTTGGAAGAAATTGTGGCCAAAGAGGTGCT
ACATGTATTGAAAGAAAAGGTTACTTCTCTACCTGATAACCATAAAAGTGCCCTTGCTGCTGACATAGATGAAATTGTAT
ATACATCAACAGGAGACATCTCCATTTACTATGATGAGAAAGGAAGGAAGTTTGTTAACATCCTGATGTGCTTTTGGTAT
CTAACCAGTGCCAACGTCCCCAATGAAACTATACGTGGAGCCAGTGTATTCCAAGTTAAGTTGGGGGATCAGAATGTGGA
AACTAAACAACTTCTTAGTGCAAACTATGAATTTCAGAGAGAATTTACACAAGGAGTAAAGCCCAACTGGACCATTGCAC
GGATTGAAAACCCAAAATTATTGGAA
ORF - retro_ocun_336 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 96.48 % |
| Parental protein coverage: | 50.18 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | QAFAYVSKLLSQCKFDLLEELVAKEVLHVLKEKVTSLPDNHKSALAADIDEIVYTSTGDISIYYDEKGRK |
| .AFAYVSKLLSQ.KFDLLEE.VAKEVLHVLKEKVTSLPDNHKSALAADIDEIVYTSTGDISIYYDEKGRK | |
| Retrocopy | EAFAYVSKLLSQSKFDLLEEIVAKEVLHVLKEKVTSLPDNHKSALAADIDEIVYTSTGDISIYYDEKGRK |
| Parental | FVNILMCFWYLTSANVPNETIRGASVFQVKLGDQNVETKQLLSASYEFQREFTQGVKPNWTIARIEHPKL |
| FVNILMCFWYLTSANVPNETIRGASVFQVKLGDQNVETKQLLSA.YEFQREFTQGVKPNWTIARIE.PKL | |
| Retrocopy | FVNILMCFWYLTSANVPNETIRGASVFQVKLGDQNVETKQLLSANYEFQREFTQGVKPNWTIARIENPKL |
| Parental | LE |
| LE | |
| Retrocopy | LE |
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 .11 RPM | 4 .30 RPM |
| SRP017611_kidney | 0 .00 RPM | 9 .73 RPM |
| SRP017611_liver | 0 .00 RPM | 3 .62 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_336 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_336 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_336 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 | ENSOCUG00000017946 | 1 retrocopy |
retro_ocun_336 ,
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