RetrogeneDB ID: | retro_rnor_2293 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 6:61724032..61724553(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Car13 | ||
| Ensembl ID: | ENSRNOG00000021323 | ||
| Aliases: | Car13, RGD1560453 | ||
| Description: | carbonic anhydrase 13 [Source:RefSeq peptide;Acc:NP_001128465] |
Retrocopy-Parental alignment summary:
>retro_rnor_2293
TATAGGTTGCGGCAGTTCCATCTGCACTGGGGGTCAGCAGACAACCTTGGCTCTGAGTCTGTGGTAGATAGAGTGAGGTA
TGCTGTTCAGTTCCATGTTGTCCACTAGATTTCAGACAAATACCCCAGTTTTGTAGAGGCAGCTCATGAGTCCGATAGGC
TGGCTGTCCTGGGAGTATTTCTACAGATTGGGGAACACAATCCTCAACTGCAAAGATCACTGCCATTTTGGATTCCATTA
AGGAAAAGGGTAAACAAACATGGTTCACAAATGTTGACCCGTTATGTTTGCTTTCATCATCCTGGGACTACTGGACAGAT
CCCGGTTCTCTGATGGTTCCACCTCTTCTTAACAGTGTCACGTGGATTGTTTTAAAACAACCTGTAAGTATCAGCTTTTA
ACAGTTGGTCAGATTCCGAAGCCTCTCATGTACAGCTGAGGGTGAGGGTGCAGCTTTTCTGTTAAGCAATCACGGTCCGC
CACAGCCCTTGAAGGGCCACAGAGTGAGAGCGTCTTTCTAC
ORF - retro_rnor_2293 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 85.14 % |
| Parental protein coverage: | 66.41 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | YRLRQFHLHWGSADDHGSEHVVDGVRYAAELHVVHWNSDKYPSFVEAAHESDGLAVLGVFLQIGEHNPQL |
| YRLRQFHLHWGSAD..GSE.VVD.VRYA...HVVH..SDKYPSFVEAAHESD.LAVLGVFLQIGEHNPQL | |
| Retrocopy | YRLRQFHLHWGSADNLGSESVVDRVRYAVQFHVVH*ISDKYPSFVEAAHESDRLAVLGVFLQIGEHNPQL |
| Parental | Q-KITDILDSIKEKGKQTRFTNFDPLCLLPSSWDYWTYPGSLTVPPLLESVTWIVLKQPISISSQQLARF |
| Q.KIT.ILDSIKEKGKQT.FTN.DPLCLL.SSWDYWT.PGSL.VPPLL.SVTWIVLKQP.SIS..QL.RF | |
| Retrocopy | Q<KITAILDSIKEKGKQTWFTNVDPLCLLSSSWDYWTDPGSLMVPPLLNSVTWIVLKQPVSISF*QLVRF |
| Parental | RSLLCTAEGESAAFLLSNHRPPQPLKGRRVRASFY |
| RSL.CTAEGE.AAFLLSNH.PPQPLKG.RVRASFY | |
| Retrocopy | RSLSCTAEGEGAAFLLSNHGPPQPLKGHRVRASFY |
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 .86 RPM |
| SRP017611_kidney | 0 .00 RPM | 2 .09 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .27 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2293 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2293 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2293 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Rattus norvegicus | ENSRNOG00000021323 | 2 retrocopies |
retro_rnor_2293 , retro_rnor_2346,
|