RetrogeneDB ID: | retro_rnor_514 | ||
Retrocopylocation | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 1:200422765..200423085(+) | ||
| Located in intron of: | ENSRNOG00000014565 | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | Arl14epl | ||
| Ensembl ID: | ENSRNOG00000025590 | ||
| Aliases: | None | ||
| Description: | Protein LOC685394 [Source:UniProtKB/TrEMBL;Acc:D3ZBL0] |
Retrocopy-Parental alignment summary:
>retro_rnor_514
GTTCGTCCTCTCAGGTTTGCAAGGCTGGCTGGTAACTTGCAGCACCAGACAGAACGGCAGCTAAAGTGCTTGGCATTTCA
GAACCCTGGACCTCGGGTGGCAGATTTGACCCCAAAACAAGGCAGCAGAGAAAGACAGCGCAGATGTCGAAGATGAAGGA
ATATTTTTCTGTGAAGTACGAGGTGATGACGTACAACAGAAACGGCAGGCTGCTCTGTAACCATGTGGACCTGTGTGACT
GCCTGCAGAAGAATGCCTGCCTGGGATGTTTCCACCTGTGTCCCAAGTGCAACTCCAACAAGTGTGGGCCGGAGCGCCGG
GTTCGTCCTCTCAGGTTTGCAAGGCTGGCTGGTAACTTGCAGCACCAGACAGAACGGCAGCTAAAGTGCTTGGCATTTCA
GAACCCTGGACCTCGGGTGGCAGATTTGACCCCAAAACAAGGCAGCAGAGAAAGACAGCGCAGATGTCGAAGATGAAGGA
ATATTTTTCTGTGAAGTACGAGGTGATGACGTACAACAGAAACGGCAGGCTGCTCTGTAACCATGTGGACCTGTGTGACT
GCCTGCAGAAGAATGCCTGCCTGGGATGTTTCCACCTGTGTCCCAAGTGCAACTCCAACAAGTGTGGGCCGGAGCGCCGG
ORF - retro_rnor_514 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 68.81 % |
| Parental protein coverage: | 70.39 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | VFPEKSSQIGQKQLQQIERQLKCLAFQNPGPQVAD-FNPETRQQKKKARMSKMNEYFSVKYKVMKKYDKN |
| V.P............Q.ERQLKCLAFQNPGP.VAD.F.P.TRQQ.K.A.MSKM.EYFSVKY.VM..Y..N | |
| Retrocopy | VRPLRFARLAGNLQHQTERQLKCLAFQNPGPRVAD<FDPKTRQQRKTAQMSKMKEYFSVKYEVM-TYNRN |
| Parental | GRLICNDVDLCDCLEKN-CLGCFYPCPKCNSNKCGPECR |
| GRL.CN.VDLCDCL.KN.CLGCF..CPKCNSNKCGPE.R | |
| Retrocopy | GRLLCNHVDLCDCLQKNACLGCFHLCPKCNSNKCGPERR |
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 .22 RPM | 0 .00 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP017611_liver | 0 .13 RPM | 0 .00 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_514 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_514 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_514 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000073568 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000025590 | 3 retrocopies |
retro_rnor_1779, retro_rnor_2167, retro_rnor_514 ,
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