RetrogeneDB ID: | retro_rnor_1521 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 2:115149727..115150229(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Dtd2 | ||
| Ensembl ID: | ENSRNOG00000006727 | ||
| Aliases: | None | ||
| Description: | probable D-tyrosyl-tRNA(Tyr) deacylase 2 [Source:RefSeq peptide;Acc:NP_001102451] |
Retrocopy-Parental alignment summary:
>retro_rnor_1521
ATGGCGGACGGCAGTCATGCGGCCCAGGCTCCAGCTCTCTTGCAGCGGTGCCTGCTCGCTGACCTGCAAGTGCGCTTGTC
TGATGACGCAGCGGCACTGTGGGTGGAGATTCAGAGAGGATTGGTGATCTATGTGTCTTTCTTCAAGGGAGCTGATACAG
AACTTCTTCCCAAAATGGTCAATATGCTGTTAAATGTGAAGTTAAGTGAAACAGAAAGCAGCAAGCACATCTCAATCCTG
GATCTGCCTGGTGCTGTTCTGATCATCCCCCAGGCCACCCTCGGGAGCAGGGTGACAGGACAGAGGGTGCAGTACCACTC
AAACTCTGGGAAGGAGGACGGCTTAGAGCTGTACTCCCAGGTCGTGTGTCTGTGTTGAAAAATCCGTGGCCAACATCAGC
AAGTGCGTAGAAGCGGAGGTTGCAGTGGCGCACGGCACATACGGGAACAGGTAAGTGTCAAAGCTGGACGTCAACGGACC
ATACAGGCACCTCATTGAGTTT
ORF - retro_rnor_1521 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 77.51 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MADGGREVQARALLQQCLHARLQVRPADGDAEAQWVEIRRGLVIYVCFFKGANTELLPKMVNTLLNVKLS |
| MADG....QA.ALLQ.CL.A.LQVR..D.DA.A.WVEI.RGLVIYV.FFKGA.TELLPKMVN.LLNVKLS | |
| Retrocopy | MADGSHAAQAPALLQRCLLADLQVRLSD-DAAALWVEIQRGLVIYVSFFKGADTELLPKMVNMLLNVKLS |
| Parental | ETETGKHVSILDLPGDILIIPQATLGGRVKGRSMQYHSNSGKEEGLELYSQFVCLC-EKAVTNNSKCVEA |
| ETE..KH.SILDLPG..LIIPQATLG.RV.G...QYHSNSGKE.GLELYSQ.VCLC.EK.V.N.SKCVEA | |
| Retrocopy | ETESSKHISILDLPGAVLIIPQATLGSRVTGQRVQYHSNSGKEDGLELYSQVVCLC>EKSVANISKCVEA |
| Parental | GVAVAHGTYGNRQVLKLDTNGPYTHLIEF |
| .VAVAHGTYGNR.V.KLD.NGPY.HLIEF | |
| Retrocopy | EVAVAHGTYGNR*VSKLDVNGPYRHLIEF |
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 | 5 .68 RPM |
| SRP017611_kidney | 0 .00 RPM | 8 .44 RPM |
| SRP017611_liver | 0 .00 RPM | 5 .51 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1521 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1521 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_1521 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 | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000038020 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000006727 | 1 retrocopy |
retro_rnor_1521 ,
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