RetrogeneDB ID: | retro_rnor_2672 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 9:29431070..29431400(+) | ||
| Located in intron of: | ENSRNOG00000012759 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Arl3 | ||
| Ensembl ID: | ENSRNOG00000019973 | ||
| Aliases: | None | ||
| Description: | ADP-ribosylation factor-like protein 3 [Source:UniProtKB/Swiss-Prot;Acc:P37996] |
Retrocopy-Parental alignment summary:
>retro_rnor_2672
GAGAGGAAAATCAGACCATGCTGGAGGAGTTACCTTACAAATATCAATATTCTTCTATTTGTAATCGGCAGTTCAGACAG
AAAAAGGTTTGACGGGTCAAGAACTAATGGAATTACTTGAGGGAGGAAAGTAAGTTGTGTACCAGTATTTGCGTTTGCTA
AGAAGCAGGATCTGTTCACAGCATCACTGGCCTCTGAGACTTCAGAAGGGCTGGACCCATACACCCTCCCGGACCCAGTC
TGGAAGATCCAGTTCTGCTCAGCTATCACAGACAAGGGCCTCCAGGTCGGCACAAACAGGGTCTGCATAAATGTCAGTGT
CAACAAGAAA
ORF - retro_rnor_2672 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 53.57 % |
| Parental protein coverage: | 61.88 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | QRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLVFANKQDLLTAAPAAEIA |
| .RKIRP.WRSY..N..IL..VI.S.DRKRF...G..........K.SCVPV..FA.KQDL.TA..A.E.. | |
| Retrocopy | ERKIRPCWRSYLTNINILLFVIGSSDRKRFD--GSRTNGIT*GRKVSCVPVFAFAKKQDLFTASLASETS |
| Parental | EGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNAKKK |
| EGL...T..D.VW.IQ.CSA.T..G.Q.G.N.VC.NV...KK | |
| Retrocopy | EGLDPYTLPDPVWKIQFCSAITDKGLQVGTNRVCINVSVNKK |
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 | 70 .46 RPM |
| SRP017611_kidney | 0 .00 RPM | 28 .54 RPM |
| SRP017611_liver | 0 .00 RPM | 5 .58 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2672 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2672 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2672 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 | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000017816 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000019973 | 1 retrocopy |
retro_rnor_2672 ,
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