RetrogeneDB ID: | retro_rnor_2381 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 6:98274987..98275239(-) | ||
| Located in intron of: | ENSRNOG00000000618 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Timm8a1 | ||
| Ensembl ID: | ENSRNOG00000011226 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_rnor_2381
TTGCTCTCCGTGGACCCCTAGCTGCAGCATTTCATGGAGATGGAGATGCAGAAGCAGAGGCTTCCAGCAGCTGGTGCACC
TGGTGACAGACTTTGCCTGGAGAAGTGCAGGGATAAGCCTGGGCCTAAGTTGGACAGTCGAACTGAGGCTTCTTTGGTGA
GCTGCCTTGAACGCTTCATTGATACAAACCACTTCATCTTAAGTCGACTGGAGCAGACCCAGAAGTGCAAACCTGTCTTC
TCAGAAAGTCTT
ORF - retro_rnor_2381 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 68.6 % |
| Parental protein coverage: | 86.6 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | LAAVDPQLQHFIEVETQKQR-FQQLVHQMTELCWETVG-DRSGPKLDSRAEACFVNCVERFIDTSQFILN |
| L..VDP.LQHF.E.E.QKQR.FQQLVH..T...W...G.D..GPKLDSR.EA..V.C.ERFIDT..FIL. | |
| Retrocopy | LLSVDP*LQHFMEMEMQKQR>FQQLVHLVTDFAWRSAG<DKPGPKLDSRTEASLVSCLERFIDTNHFILS |
| Parental | RLEQTQKSKPVFSESL |
| RLEQTQK.KPVFSESL | |
| Retrocopy | RLEQTQKCKPVFSESL |
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 | 3 .74 RPM |
| SRP017611_kidney | 0 .00 RPM | 7 .40 RPM |
| SRP017611_liver | 0 .00 RPM | 5 .38 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2381 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2381 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2381 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Rattus norvegicus | ENSRNOG00000011226 | 2 retrocopies |
retro_rnor_2381 , retro_rnor_293,
|