RetrogeneDB ID: | retro_rnor_2733 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 9:56152311..56152929(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Mettl6 | ||
| Ensembl ID: | ENSRNOG00000019520 | ||
| Aliases: | None | ||
| Description: | Methyltransferase-like protein 6 [Source:UniProtKB/Swiss-Prot;Acc:Q6AXU8] |
Retrocopy-Parental alignment summary:
>retro_rnor_2733
TTGAAGAGCTAAGATCATTATGAAGGTTAAAAAATTGACTGTATTGGAAACTGGATATGGGGTTGGGAACTGTTTCTTCC
CATTTTTAGAAGAATATTTGAATATAATTGCCTATGCCTGTGATTTTTCTTCAACGGCAGTTGACTACATGTTGCAACAT
CCTTTGAACAGCGCAGAGAGATGCAAAGTGTTCCAGTGTAACCTCACTAAAGATGACCATGACCATGTCCCACCTGAGTC
TGTGGATGCCGTCACATTGATCTTTGGGCTCTCAGCTGTGTGCCCTGAGAAGACGCACCTCATCTTATGAAATGTGCACC
AGGTATTAAAACCAGGCAGAAATGTCTTGTTCCATGACTATGGGCTCAATGGTCATGCCATGCTTACATTTAAAGCTGGA
AGCCAGCCTGGAGAAAATTTCTATGTCAGACAAGATGGAAACAGATTGTGTGTTTTTACTGATGAATTCCTGGCATAGTT
GTTGGCAGATGCAGGCTATGAAGAAGTGGTGAATGAGGATGTGTTTCAAGAGACCGTGAGTACAAAAGAGGGCCTGTTTG
TGCCATGGGTTTCCTTCAGAGCAAGTTCTGGAAGCCTCTGAAGAACCCAGCACCTACC
ORF - retro_rnor_2733 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 73.68 % |
| Parental protein coverage: | 72.13 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | LRSCREYEG-QKLTLLEAGCGVGNCLFPLLEEDSNIFAYACDFSPRAVDYVKQHPLYNAERCKVFQCDLT |
| L.S...YEG..KLT.LE.G.GVGNC.FP.LEE..NI.AYACDFS..AVDY..QHPL..AERCKVFQC.LT | |
| Retrocopy | LKS*DHYEG>KKLTVLETGYGVGNCFFPFLEEYLNIIAYACDFSSTAVDYMLQHPLNSAERCKVFQCNLT |
| Parental | RDDLLDHIPPESVDAVTLIFVLSAVHPEKMHLVLLNVYKVLKPGRSVLFRDYGLNDHAMLRFKAGSKLGE |
| .DD..DH.PPESVDAVTLIF.LSAV.PEK.HL.L.NV..VLKPGR.VLF.DYGLN.HAML.FKAGS..GE | |
| Retrocopy | KDDH-DHVPPESVDAVTLIFGLSAVCPEKTHLIL*NVHQVLKPGRNVLFHDYGLNGHAMLTFKAGSQPGE |
| Parental | NFYVRQDGTRSYFFTDEFLAKLFVDAGYEEVVNEYVFRETVNKKEGLCVPRV-FLQSKFRKPPKDPAPT |
| NFYVRQDG.R...FTDEFLA.L..DAGYEEVVNE.VF.ETV..KEGL.VP.V.FLQSKF.KP.K.PAPT | |
| Retrocopy | NFYVRQDGNRLCVFTDEFLA*LLADAGYEEVVNEDVFQETVSTKEGLFVPWV<FLQSKFWKPLKNPAPT |
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 | 9 .42 RPM |
| SRP017611_kidney | 0 .00 RPM | 9 .91 RPM |
| SRP017611_liver | 0 .00 RPM | 9 .35 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2733 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2733 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2733 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 | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000021891 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000019520 | 1 retrocopy |
retro_rnor_2733 ,
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