RetrogeneDB ID: | retro_rnor_1117 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 15:67509360..67509847(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Cyp2c79 | ||
| Ensembl ID: | ENSRNOG00000030661 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_rnor_1117
CAGAAAGAGATTGACCATGTGATTGGTAGACACAGGAGCCCCTGCATACAGGACAGGAATCACGCATCCTATGCTGATGC
TACAGTGCCCAAGATGCAGAAATACATTGACCTTCTTCCCACCAGCCTTCTCCATGCAGTGACCTATGACTTGAAATTCA
GAAACAGCCTCATTCCCAAGGATACCACTGTCATAACATCACTGACTTCTGTGCTACATTATGATAAAGAATTACCCAAT
TCAGAGAGGTTTGATCCTAGTCACTTTCTAGATGAATGTGGCTTTTAAGAAAGGTGACCACTTGTTTTCCTATCTCAACA
GGAGAATAGGTTTGTGTGAGAGAGGGTCTGGCTGAAACAGAATTATTTTTATTCCTGACTATCATTTTACAAAACTTTAA
CTGAAATCTCCCATCGATCTGAAAGCCGTTGAAACCAATGGATTGATTTCGGTGCTACACAAGTTGCAGGTAAGTTTCAT
TCCTGTC
ORF - retro_rnor_1117 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 65.09 % |
| Parental protein coverage: | 50.76 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | QEEIDHVIGRHRSPCMQDRHHMPYTDAVLHEIQRYIDLLPTSLPHALTCDMKFRDYFIPKGTTVIASLTS |
| Q.EIDHVIGRHRSPC.QDR.H..Y.DA.....Q.YIDLLPTSL.HA.T.D.KFR...IPK.TTVI.SLTS | |
| Retrocopy | QKEIDHVIGRHRSPCIQDRNHASYADATVPKMQKYIDLLPTSLLHAVTYDLKFRNSLIPKDTTVITSLTS |
| Parental | VLYDDKEFPNPEKFDPSHFLDENG-KVKKSDYFFPFSTGKRICVGEGLARTELFLFLTTILQNFN-LKSP |
| VL..DKE.PN.E.FDPSHFLDE.G....K....FP.STG...CV.EGLA.TELFLFLT.ILQNFN.LKSP | |
| Retrocopy | VLHYDKELPNSERFDPSHFLDECG<LLRKVTTCFPISTGE*VCVREGLAETELFLFLTIILQNFN<LKSP |
| Parental | VDLKELDTNPVANGFVSVPPKFQICFIPI |
| .DLK...TN....G..SV..K.Q..FIP. | |
| Retrocopy | IDLKAVETN----GLISVLHKLQVSFIPV |
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 | 0 .00 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1117 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1117 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_1117 has 1 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Mus musculus | retro_mmus_1221 |
Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000067229 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000030661 | 1 retrocopy |
retro_rnor_1117 ,
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