RetrogeneDB ID: | retro_rnor_461 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 1:96080934..96081186(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSRNOG00000037364 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Cdc42se2 | ||
| Ensembl ID: | ENSRNOG00000042449 | ||
| Aliases: | Cdc42se2, RGD1563924 | ||
| Description: | CDC42 small effector protein 2 [Source:UniProtKB/Swiss-Prot;Acc:A1L1K4] |
Retrocopy-Parental alignment summary:
>retro_rnor_461
ATGAGTGAATTCTGGCTGTGCTTCAACTGCTGTATTGCAGAGCAGCCTCAGCCTAAGAGGCGACGACGGATTGACCGAAG
TATGATTGGGGAACCAACCAACTTTGTGCACACAGCTCACGTAGGATCCGGAGACCTATTTAGTGGGATGAACTCGGTCA
GCTCCATTCAGAACCAGATGCAGTCCAAGGGAGGTTATGGAGGAGGAATGCCTGCCAATGTGCAGATGCAGCTTGTGGAC
ACAAAGGCAGGA
ORF - retro_rnor_461 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 100.0 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MSEFWLCFNCCIAEQPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFSGMNSVSSIQNQMQSKGGYGGGM |
| MSEFWLCFNCCIAEQPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFSGMNSVSSIQNQMQSKGGYGGGM | |
| Retrocopy | MSEFWLCFNCCIAEQPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFSGMNSVSSIQNQMQSKGGYGGGM |
| Parental | PANVQMQLVDTKAG |
| PANVQMQLVDTKAG | |
| Retrocopy | PANVQMQLVDTKAG |
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 .86 RPM | 91 .45 RPM |
| SRP017611_kidney | 0 .07 RPM | 38 .31 RPM |
| SRP017611_liver | 0 .20 RPM | 8 .14 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_461 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_461 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_461 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000008774 | 1 retrocopy | |
| Cavia porcellus | ENSCPOG00000005142 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000042449 | 2 retrocopies |
retro_rnor_461 , retro_rnor_696,
|