RetrogeneDB ID: | retro_rnor_2167 | ||
Retrocopylocation | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 5:111607023..111607320(+) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | Arl14epl | ||
| Ensembl ID: | ENSRNOG00000025590 | ||
| Aliases: | None | ||
| Description: | Protein LOC685394 [Source:UniProtKB/TrEMBL;Acc:D3ZBL0] |
Retrocopy-Parental alignment summary:
>retro_rnor_2167
GTTTGTCCTGTCAGGTTTGCAAGGTTGGGTGGTAACTCACAGCAACAGATAGAATGGCAGCTAAAGTGCTTGGCATTTCA
AAACCCTGGACCTCAGGTGGCAGATTTTAATCCCTAGACAAGGCAGCCGAAAAAGAAAGCATGGATGTCAAAGATGAATG
TTTTTCTGTGAAGTACAAGGTGATGAAGAAGTATGACAAAAGCAACAGGCTGATCTGTAATGACGTGGAACCTATGTGAC
TGCCTGGAGAACTGTCTGGGATGCATCTACCCATGTCCCAAGTGCAACTCCCACAAG
GTTTGTCCTGTCAGGTTTGCAAGGTTGGGTGGTAACTCACAGCAACAGATAGAATGGCAGCTAAAGTGCTTGGCATTTCA
AAACCCTGGACCTCAGGTGGCAGATTTTAATCCCTAGACAAGGCAGCCGAAAAAGAAAGCATGGATGTCAAAGATGAATG
TTTTTCTGTGAAGTACAAGGTGATGAAGAAGTATGACAAAAGCAACAGGCTGATCTGTAATGACGTGGAACCTATGTGAC
TGCCTGGAGAACTGTCTGGGATGCATCTACCCATGTCCCAAGTGCAACTCCCACAAG
ORF - retro_rnor_2167 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.87 % |
| Parental protein coverage: | 66.45 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | VFPEKSSQIGQKQLQQIERQLKCLAFQNPGPQVADFNPETRQQKKKAR-MSKMNEYFSVKYKVMKKYDKN |
| V.P......G....QQIE.QLKCLAFQNPGPQVADFNP.TR.Q.KK...M....E.FSVKYKVMKKYDK. | |
| Retrocopy | VCPVRFARLGGNSQQQIEWQLKCLAFQNPGPQVADFNP*TR-QPKKKA<MDVKDECFSVKYKVMKKYDKS |
| Parental | GRLICNDVD-LCDCLEKNCLGCFYPCPKCNSNK |
| .RLICNDV..LCDCLE.NCLGC.YPCPKCNS.K | |
| Retrocopy | NRLICNDVE>LCDCLE-NCLGCIYPCPKCNSHK |
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 .00 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2167 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2167 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2167 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000073568 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000025590 | 3 retrocopies |
retro_rnor_1779, retro_rnor_2167 , retro_rnor_514,
|