RetrogeneDB ID: | retro_rnor_2816 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | X:69660303..69660615(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RGD1305045 | ||
| Ensembl ID: | ENSRNOG00000005884 | ||
| Aliases: | None | ||
| Description: | UPF0480 protein C15orf24 homolog [Source:RefSeq peptide;Acc:NP_001099966] |
Retrocopy-Parental alignment summary:
>retro_rnor_2816
AAGATAGATGGGAGTTTTGTAGTTCATGGTTTCTCACCAGGCTCTTATGTAGTAGAAGTTATTTTTCCAGCTTACAAGTT
TGATCCTGCCCAAGTTGATATCACTTAAATAGAAAAAAAAATGAGGGCAAGATATGCGAATTACATCAAAAGAGCAAAAG
TGGTCGGACTACCCTGTCCTTTCCAAATGAAATCTTCAGGTCCCCCTTCTCACATTATTTGAATAGAGTTGTAGAACCGG
ACAGACTATCTGACAAACCTGATAGTTATGATGATGGTTTTTCCATTATTGAAATTTGTGCTTCTGCCAAAA
ORF - retro_rnor_2816 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 65.38 % |
| Parental protein coverage: | 60.95 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | RTDGSFVVHDIPSGSYVVEVISPAYKFDPVRVDIT-SKGKMRARYVNYIKTSEVVRLPYPLQMKSSGPPS |
| ..DGSFVVH....GSYVVEVI.PAYKFDP..VDIT......RARY.NYIK...VV.LP.P.QMKSSGPPS | |
| Retrocopy | KIDGSFVVHGFSPGSYVVEVIFPAYKFDPAQVDIT*IXXXXRARYANYIKRAKVVGLPCPFQMKSSGPPS |
| Parental | YFIKRESWGWTDFLMNPMVMMMVLPLLIFVLLPK |
| ..I..E....TD.L.N..VMMMV.PLL.FVLLPK | |
| Retrocopy | HII*IEL*NRTDYLTNLIVMMMVFPLLKFVLLPK |
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 | 46 .01 RPM |
| SRP017611_kidney | 0 .00 RPM | 45 .99 RPM |
| SRP017611_liver | 0 .00 RPM | 42 .16 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2816 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2816 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2816 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 | |
|---|---|---|---|
| Rattus norvegicus | ENSRNOG00000005884 | 1 retrocopy |
retro_rnor_2816 ,
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