RetrogeneDB ID: | retro_rnor_124 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | X:73290612..73291833(+) | ||
| Located in intron of: | ENSRNOG00000003063 | ||
Retrocopy information | Ensembl ID: | ENSRNOG00000003062 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KLHDC2 | ||
| Ensembl ID: | ENSRNOG00000004474 | ||
| Aliases: | None | ||
| Description: | Kelch domain-containing protein 2 [Source:UniProtKB/Swiss-Prot;Acc:Q3KRE6] |
Retrocopy-Parental alignment summary:
>retro_rnor_124
ATGGCTGATGGCAACGAGGATGCTCGAGCGGAGGACATGCCAGGCCCGGCCTTCGAAGGCTATGAGGCCATGGAGCTGGC
CTGCCCGGCCGAGCGCAGCGGCCACGTCGCTGTCAGCGATGGGCGCCACATGTTCGTCTGGGGCGGCTACAAGAGTAATC
AAGTGAGAGGACTCTATGACTTCTATCTGCCCAGAGAAGAACTGTGGATCTACAACATGGAGAGTGGAAGATGGAAAAAG
ATCAACACTGAAGGTGATGTGCCCCCGTCCATGTCTGGGAGCTGCGCTGTGTGCGTAGACAGGGTGCTGTACTTGTTTGG
AGGCCACCATTCCAGAGGCAACACAAACAAGTTCTACATGCTGGACTCAAGGTCTGCAGACAGAGTGTTACAGTGGGAAA
GAATTGATTGCCAAGGAATTCCTCCATCATCAAAGGACAAACTTGGTGTCTGGGTATATAAAAACAAGTTAATATTTTTT
GGAGGCTATGGATATATACCTGAAGATAAAGTATTGGGGACGTTTGAATTTGATGAAACATCTTTTCGGAATTCAAGTCA
TCCAAGAGGATGGAATGATCATGTCCATATTTTAGACACTGAAACATTTGCCTGGAGCCAGCCCATCACCACTGGCAAGG
CACCTTCACCTCGTGCTGCCCATGCCTGTGCAACTGTTGGAAACAAGGGTTTTGTGTTTGGTGGCAGATACCGAGATACT
AGAATGAATGATCTGCACTATCTTAATCTGGACACATGGGAGTGGAATGAACTAATTCCACAAGGTATATGCCCTGTTGG
CCGCTCCTGGCACTCACTGACAGCAGTCTCTTCAGACCATCTTTTTCTCTTCGGAGGATTTACCACTGAAAAGCAGCCAC
TAAGTGATGCCTGGACTTACTGCATCAGTAAAAATGAATGGATTCAGTTTAATCATTCTTATGTTGAAAAACCAAGATTA
TGGCATACAGCTTGTGCGAGCGATGAGGGAGAAGTAATTGTTTTTGGTGGTTGTGCCAACAATCTGCTGGTCCATCATAG
GGCTGCACACAGTAACGAAGTACTTATATTTTCAGTCCAACCAAAATCTCTTGTACGGCTAAGCTTAGAAGCAGTCATTT
GCTTTAAAGATATGCTAGCCAACTCGTGGAGCTGCCTTCCAAAACACTTACTTCACAGTGTTAATCAGAGGTTTGGTAGT
AACAACAGTTCTGGATCATAA
ORF - retro_rnor_124 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.03 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MADGNEDARAEDMPGPAFEGYEAMELACPAERSGHVAVSDGRHMFVWGGYKSNQVRGLYDFYLPREELWI |
| MADGNEDARAEDMPGPAFEGYEAMELACPAERSGHVAVSDGRHMFVWGGYKSNQVRGLYDFYLPREELWI | |
| Retrocopy | MADGNEDARAEDMPGPAFEGYEAMELACPAERSGHVAVSDGRHMFVWGGYKSNQVRGLYDFYLPREELWI |
| Parental | YNMETGRWKKINTEGDVPPSMSGSCAVCVDRVLYLFGGHHSRGNTNKFYMLDSRSADRVLQWERIDCQGI |
| YNME.GRWKKINTEGDVPPSMSGSCAVCVDRVLYLFGGHHSRGNTNKFYMLDSRSADRVLQWERIDCQGI | |
| Retrocopy | YNMESGRWKKINTEGDVPPSMSGSCAVCVDRVLYLFGGHHSRGNTNKFYMLDSRSADRVLQWERIDCQGI |
| Parental | PPSSKDKLGVWVYKNKLIFFGGYGYLPEDKVLGTFEFDETSFWNSSHPRGWNDHVHILDTETFAWSQPIT |
| PPSSKDKLGVWVYKNKLIFFGGYGY.PEDKVLGTFEFDETSF.NSSHPRGWNDHVHILDTETFAWSQPIT | |
| Retrocopy | PPSSKDKLGVWVYKNKLIFFGGYGYIPEDKVLGTFEFDETSFRNSSHPRGWNDHVHILDTETFAWSQPIT |
| Parental | TGKAPSPRAAHACATVGNKGFVFGGRYRDARMNDLHYLNLDTWEWNELIPQGICPVGRSWHSLTPVSSDH |
| TGKAPSPRAAHACATVGNKGFVFGGRYRD.RMNDLHYLNLDTWEWNELIPQGICPVGRSWHSLT.VSSDH | |
| Retrocopy | TGKAPSPRAAHACATVGNKGFVFGGRYRDTRMNDLHYLNLDTWEWNELIPQGICPVGRSWHSLTAVSSDH |
| Parental | LFLFGGFTTEKQPLSDAWTYCISKNEWIQFNHPYVEKPRLWHTACASDEGEVIVFGGCANNLLVHHRAAH |
| LFLFGGFTTEKQPLSDAWTYCISKNEWIQFNH.YVEKPRLWHTACASDEGEVIVFGGCANNLLVHHRAAH | |
| Retrocopy | LFLFGGFTTEKQPLSDAWTYCISKNEWIQFNHSYVEKPRLWHTACASDEGEVIVFGGCANNLLVHHRAAH |
| Parental | SNEVLIFSVQPKSLVRLSLEAVICFKEMLANSWSCLPKHLLHSVNQRFGSNNTSGS |
| SNEVLIFSVQPKSLVRLSLEAVICFK.MLANSWSCLPKHLLHSVNQRFGSNN.SGS | |
| Retrocopy | SNEVLIFSVQPKSLVRLSLEAVICFKDMLANSWSCLPKHLLHSVNQRFGSNNSSGS |
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 .43 RPM | 59 .39 RPM |
| SRP017611_kidney | 0 .07 RPM | 26 .94 RPM |
| SRP017611_liver | 0 .00 RPM | 16 .41 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_124 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_124 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_124 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 | |
|---|---|---|---|
| Microcebus murinus | ENSMICG00000007045 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000004474 | 1 retrocopy |
retro_rnor_124 ,
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