RetrogeneDB ID: | retro_rnor_2851 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | X:113721921..113723124(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSRNOG00000005402 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Cdk11b | ||
| Ensembl ID: | ENSRNOG00000017213 | ||
| Aliases: | None | ||
| Description: | cyclin-dependent kinase 11B [Source:RefSeq peptide;Acc:NP_665709] |
Retrocopy-Parental alignment summary:
>retro_rnor_2851
GGTGAGGGGAGCAGCGCCTCTACCAAGGGAGACTATGTGCCCGACTCTCCAGCTCTGTCACCTATTGAGCTAAAACAAGA
GCTGCCCAAGTACCTGCCAGCCCTGCAGGGATGCCGGAGTGTAGAAGAGTTTCAGTGTCTGAACAGGATTGAAGAAGGCA
CCTATGGGGTGGTCTACAGAGCAAAGGACAAGAAAACAGATGAGATTGTGGCTCTGAAGCGGTTAAAGATGGAGAAGGAG
AAGGAAGGCTTCCCGATCACATCACTGAGGGAAATCAACACCATCCTCAAGGCCCAGCACCCCAATATCATCACTGTCAG
AGAAATTGTTGTGGGAAGCAACATGGACAAGATCTACATTGTGATGAACTATGTGGAACACGACCTCAAGAGCCTAATGG
AGACTATGAAACAGCCCTTCCTGCCAGGGGAGGTGAAGACCCTGATGATTCAGCTGCTGAGTGGGGTGAAGCATCTCCAT
GACAATTGGATCCTACATCGTGACCTTAAGACCTCTAACCTTCTGCTGAGCCATGCTGGCATTCTCAAGGTGGGCGACTT
TGGGCTGGCTCGGGAGTATGGTTCACCCCTAAAGGCCTACACTCCAGTTGTTGTAACCCTGTGGTATCGTGCCCCAGAAC
TGCTGCTTGGTGCTAAGGAATACTCCACAGCTGTGGACATGTGGTCAGTGGGCTGCATATTTGGAGAACTGCTGACACAG
AAACCTCTGTTCCCTGGGAAGTCAGAGATTGATCAGATTGACAAGGTTTTCAAGGACCTGGGGACTCCCAGTGAGAAAAT
CTGGCCTGGCTATAATGACCTCCCAGCCGTCAAGAAGATGACCTTCAGCGAGTATCCCTATAACAACCTCCGCAAGCGAT
TCGGGGCTTCGTTATCAGATCAAGGATTTGATCTCATGAACAAGTTTCTGACTTACTTCCCTGGGAGGAGGGTCAGTGCA
GAAGATGGCCTCAAGCATGAGTATTTCCGAGAGACTCCCCTCCCCATCGACTCATCCATGTTCCCCACATGGCCTGCCAA
GAGTGAGCAGCAGAGGGTGAAGAGAGGCACGAGTCCGCGGGCCCCTGAGGGCGGCCTGGGGTACAGCCAGCTGGAGGATG
ACGACCTGAAGGAGACGGGCTTCCACCTCACCACCACCAACCAGGGAGCCTCAGCTGCTGGCCCTGGCTTCAGCCTCAAG
TTC
ORF - retro_rnor_2851 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 95.76 % |
| Parental protein coverage: | 91.74 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | GHRRAAPLPRDYVPDSPALSPIELKQELPKYLPALQGCRSVEEFQCLNRIEEGTYGVVYRAKDKKTDEIV |
| G....A....DYVPDSPALSPIELKQELPKYLPALQGCRSVEEFQCLNRIEEGTYGVVYRAKDKKTDEIV | |
| Retrocopy | GEGSSASTKGDYVPDSPALSPIELKQELPKYLPALQGCRSVEEFQCLNRIEEGTYGVVYRAKDKKTDEIV |
| Parental | ALKRLKMEKEKEGFPITSLREINTILKAQHPNIVTVREIVVGSNMDKIYIVMNYVEHDLKSLMETMKQPF |
| ALKRLKMEKEKEGFPITSLREINTILKAQHPNI.TVREIVVGSNMDKIYIVMNYVEHDLKSLMETMKQPF | |
| Retrocopy | ALKRLKMEKEKEGFPITSLREINTILKAQHPNIITVREIVVGSNMDKIYIVMNYVEHDLKSLMETMKQPF |
| Parental | LPGEVKTLMIQLLSGVKHLHDNWILHRDLKTSNLLLSHAGILKVGDFGLAREYGSPLKAYTPVVVTLWYR |
| LPGEVKTLMIQLLSGVKHLHDNWILHRDLKTSNLLLSHAGILKVGDFGLAREYGSPLKAYTPVVVTLWYR | |
| Retrocopy | LPGEVKTLMIQLLSGVKHLHDNWILHRDLKTSNLLLSHAGILKVGDFGLAREYGSPLKAYTPVVVTLWYR |
| Parental | APELLLGAKEYSTAVDMWSVGCIFGELLTQKPLFPGKSEIDQINKVFKDLGTPSEKIWPGYNDLPAVKKM |
| APELLLGAKEYSTAVDMWSVGCIFGELLTQKPLFPGKSEIDQI.KVFKDLGTPSEKIWPGYNDLPAVKKM | |
| Retrocopy | APELLLGAKEYSTAVDMWSVGCIFGELLTQKPLFPGKSEIDQIDKVFKDLGTPSEKIWPGYNDLPAVKKM |
| Parental | TFSEYPYNNLRKRFGALLSDQGFDLMNKFLTYFPGRRVSAEDGLKHEYFRETPLPIDSSMFPTWPAKSEQ |
| TFSEYPYNNLRKRFGA.LSDQGFDLMNKFLTYFPGRRVSAEDGLKHEYFRETPLPIDSSMFPTWPAKSEQ | |
| Retrocopy | TFSEYPYNNLRKRFGASLSDQGFDLMNKFLTYFPGRRVSAEDGLKHEYFRETPLPIDSSMFPTWPAKSEQ |
| Parental | QRVKRGTSPRPPEGGLGYSQLGDDDLKETGFHLTTTNQGAS-CWPWFSLKF |
| QRVKRGTSPR.PEGGLGYSQL.DDDLKETGFHLTTTNQGAS...P.FSLKF | |
| Retrocopy | QRVKRGTSPRAPEGGLGYSQLEDDDLKETGFHLTTTNQGASAAGPGFSLKF |
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 .29 RPM | 40 .55 RPM |
| SRP017611_kidney | 0 .21 RPM | 29 .17 RPM |
| SRP017611_liver | 0 .13 RPM | 16 .88 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2851 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2851 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2851 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Rattus norvegicus | ENSRNOG00000017213 | 1 retrocopy |
retro_rnor_2851 ,
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