RetrogeneDB ID: | retro_rnor_1367 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 18:75827066..75827704(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSRNOG00000015965 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Mbnl3 | ||
| Ensembl ID: | ENSRNOG00000002487 | ||
| Aliases: | Mbnl3, RGD1565834 | ||
| Description: | muscleblind-like protein 3 [Source:RefSeq peptide;Acc:NP_001100419] |
Retrocopy-Parental alignment summary:
>retro_rnor_1367
CAGGGTCGGTGCACTCGTGAGAACTGCCAGTACCTCCACCCTCCACCCCACTTAAAGTCGCAGCTAGAAATTAATGGGAG
AAACAATCTGATTCAACAGAAGACTGCCGCAGCCATGTTCGCCCAGCAGATGCAGCTTTTGCTTCAGAATGCTCAGATGT
CATCTCTTGTATCTTTTCCTATGAATCCATCACTTGCAGCTAATCCTACCATGGCTTTCCAACCTACATACCTCATCCTG
GGATGGGCCTGGTTCCTGCTGATCTTTTTCCAAATGGTCCGGTACTGATTTCTGGAAACCCACCTCTTGCACTGTCAGGA
GTTCCTGGTCCAAAACCACCTCGTACGGATAGACTGGAGGTTTGCCGTGAATTTCAGCATGGAAACTGTACCCATGGGGA
GAGCGAGTGCCGCTGTGCTCACCCCACGGATGTTTCCATGATTGAAGTCACTGATAATACTGTGACAATCTGTATGGATT
ACATTAAAGGCCAATGCTCCCGGGAGAAATGCAAGTACTTTCACCCACCCCACTTGCAGGCCAAACTCAGGGCAGCTTAT
CACCAGATGAACCATTCGGCTGCCAATACAATGGCCCTGCCGCCTGGTGCACTTCGGCTGATACCAAAGAGGTCAGCT
ORF - retro_rnor_1367 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 92.13 % |
| Parental protein coverage: | 62.68 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | KGRCTRENCKYLHPPPHLKSQLEINGRNNLIQQKTAAAMFAQQMQLMLQNAQMSSLASFPMNPSLAANPT |
| .GRCTRENC.YLHPPPHLKSQLEINGRNNLIQQKTAAAMFAQQMQL.LQNAQMSSL.SFPMNPSLAANPT | |
| Retrocopy | QGRCTRENCQYLHPPPHLKSQLEINGRNNLIQQKTAAAMFAQQMQLLLQNAQMSSLVSFPMNPSLAANPT |
| Parental | MAFNP-YIPHPGMGLVPAELLPNGPVLISGNPPLALSGVPGPKPPRTDRLEVCREFQRGNCTRGESECRY |
| MAF.P.YIPHPGMGLVPA.L.PNGPVLISGNPPLALSGVPGPKPPRTDRLEVCREFQ.GNCT.GESECR. | |
| Retrocopy | MAFQP<YIPHPGMGLVPADLFPNGPVLISGNPPLALSGVPGPKPPRTDRLEVCREFQHGNCTHGESECRC |
| Parental | AHPTDVSMIEVTDNTVTICMDYIKGRCSREKCKYFHPPPHLQAKLRAAHHQMNHSAAANAMALPPGALQL |
| AHPTDVSMIEVTDNTVTICMDYIKG.CSREKCKYFH.PPHLQAKLRAA.HQMNHS.AAN.MALPPGAL.L | |
| Retrocopy | AHPTDVSMIEVTDNTVTICMDYIKGQCSREKCKYFH-PPHLQAKLRAAYHQMNHS-AANTMALPPGALRL |
| Parental | IPKRSA |
| IPKRSA | |
| Retrocopy | IPKRSA |
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 | 0 .00 RPM |
| SRP017611_kidney | 0 .00 RPM | 1 .95 RPM |
| SRP017611_liver | 0 .00 RPM | 3 .43 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1367 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1367 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_1367 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 | ENSRNOG00000002487 | 1 retrocopy |
retro_rnor_1367 ,
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