RetrogeneDB ID: | retro_rnor_2832 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | X:86281646..86282046(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSRNOG00000048902 | ||
| Aliases: | None | ||
| Description: | Influenza virus NS1A binding protein (Predicted), isoform CRA_d; Protein Ivns1abp [Source:UniProtKB/TrEMBL;Acc:D4A0T2] |
Retrocopy-Parental alignment summary:
>retro_rnor_2832
TTAAATTACGAATACACTGCTCAGTTTAAAGCTGATAAGGATTTTAATAAAGGATGTCTATTCTGCAGCAAAGAAGCTGA
AGATGTACAGAGGAGAGCAGTTCTGCAGAGATTATTTACTATCTAGAATGGGTGTTACTAGCTGCATCTCTTAAAAGTTT
GTAAGTTGTATGGGAGACTCCTGTTTATCGAGTAAAGTTTACATTCATATTCAGGAGCATTTGTTATAACTTTCAGAAGA
AGAGCAATTTCTGAAGTTTACAAGACTAAAGTTGGAGGTAATGCTTGAAGATAATGTTTGCTTGTACAGCAATGGCAAAT
TATATGCAAAGGTAAACAACTGCGTGCAGCATAGAATCTGGAAGAATAGAGACAGCCTGGAAAAGCTCATAGAAGAGGTT
ORF - retro_rnor_2832 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 73.33 % |
| Parental protein coverage: | 60.63 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LNYAYTAQLKADKE-LVKDVYSAAKKLKMDRVKQVCGDYLLSRMDVTSCISYRNFASCMGDSRLLNKVDA |
| LNY.YTAQ.KADK..L.KDVYSAAKKLKM.R..Q.C.DYLLSRM.VTSCIS...F.SCMGDS.L..KV.. | |
| Retrocopy | LNYEYTAQFKADKD>LIKDVYSAAKKLKMYRGEQFCRDYLLSRMGVTSCIS*K-FVSCMGDSCLSSKVYI |
| Parental | YIQEHLLQISEEEEFLKLPRLKLEVMLEDNVCLPSNGKLYTKVINWVQRSIWENGDSLEELMEEV |
| .IQEHLL..SEEE.FLK..RLKLEVMLEDNVCL.SNGKLY.KV.N.VQ..IW.N.DSLE.L.EEV | |
| Retrocopy | HIQEHLL*LSEEEQFLKFTRLKLEVMLEDNVCLYSNGKLYAKVNNCVQHRIWKNRDSLEKLIEEV |
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 | 29 .69 RPM |
| SRP017611_kidney | 0 .00 RPM | 123 .51 RPM |
| SRP017611_liver | 0 .00 RPM | 23 .94 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2832 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2832 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2832 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 | ENSRNOG00000048902 | 2 retrocopies |
retro_rnor_2106, retro_rnor_2832 ,
|