RetrogeneDB ID: | retro_ocun_736 | ||
Retrocopy location | Organism: | Rabbit (Oryctolagus cuniculus) | |
| Coordinates: | 14:6664926..6665333(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FGF11 | ||
| Ensembl ID: | ENSOCUG00000004215 | ||
| Aliases: | None | ||
| Description: | fibroblast growth factor 11 [Source:HGNC Symbol;Acc:3667] |
Retrocopy-Parental alignment summary:
>retro_ocun_736
AGTGTCCAGGGCATCCCAGAGGGCATCAGCTCCTTCACCCACTCAACCTGATCCCCGTGGGGCTCTGGGCGGTCCCCATC
CAGAGTGCCAAGCTGGGTCACCACGTGGTCATGATGGCCGAGCGGCTGCTCTACAGCTCACCATATTTCACAGCTGAGTG
TCGCTTTTAGGAGTATGTCTTTGAGAACTACTATGTCCTGTACACCTCTGCTCTCTACCGCCAGTGGCATTATGGCCGGG
CCTGGTACCTAGGCCTGGATAAGGAGTGCTGGATCATGAAGGGAAACCGAGTGAATTAGACCAAGGCTGCTGCCCACTTT
GTGTCCAAGCTCCTGGAGCTGGCCATGGACTGAGAACCTTCTCTCCACAGTGTCCCCAGGATGTCCCTGTCCAGTCCCCC
TGCACCT
ORF - retro_ocun_736 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.91 % |
| Parental protein coverage: | 59.91 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | SIQGAPEDTSSFTH-FNLIPVGLRVVTIQSAKLGHYMAMNAEGLLYSSPHFTAECRFKECVFENYYVLYA |
| S.QG.PE..SSFTH..NLIPVGL..V.IQSAKLGH...M.AE.LLYSSP.FTAECRF.E.VFENYYVLY. | |
| Retrocopy | SVQGIPEGISSFTH<LNLIPVGLWAVPIQSAKLGHHVVMMAERLLYSSPYFTAECRF*EYVFENYYVLYT |
| Parental | SALYRQRRSGRAWYLGLDKEGRVMKGNRVKKTKAAAHFVPKLLEVAMYREPSLHSVPETSPSSPPAP |
| SALYRQ...GRAWYLGLDKE...MKGNRV..TKAAAHFV.KLLE.AM..EPSLHSVP..S.SSPPAP | |
| Retrocopy | SALYRQWHYGRAWYLGLDKECWIMKGNRVN*TKAAAHFVSKLLELAMD*EPSLHSVPRMSLSSPPAP |
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 | 7 .17 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .41 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .08 RPM |
Oryctolagus cuniculus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ocun_736 retrocopy.
Oryctolagus cuniculus was not studied using FANTOM5 data.
retro_ocun_736 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ocun_736 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryctolagus cuniculus | ENSOCUG00000004215 | 1 retrocopy |
retro_ocun_736 ,
|
| Sarcophilus harrisii | ENSSHAG00000004172 | 1 retrocopy |