RetrogeneDB ID: | retro_itri_458 | ||
Retrocopy location | Organism: | Squirrel (Ictidomys tridecemlineatus) | |
| Coordinates: | JH393293.1:341826..342675(+) | ||
| Located in intron of: | ENSSTOG00000012807 | ||
Retrocopy information | Ensembl ID: | ENSSTOG00000028445 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CDK20 | ||
| Ensembl ID: | ENSSTOG00000004663 | ||
| Aliases: | None | ||
| Description: | cyclin-dependent kinase 20 [Source:HGNC Symbol;Acc:21420] |
Retrocopy-Parental alignment summary:
>retro_itri_458
GTGGTGCAGCTAAAGCCCGTGTACCCGCATGGTGCAGGCTTCGTGCTGGCCTTTGAGTTCATGCTGTCAGACTTGGCAGA
GGTGGTGTGCCATGCCCAGAGGCCGCTGGCCCCAGCACAGGTCAAGAGCTACCTGCAAATGCTGCTCAAGGGTGTGGCCT
TCTGCCATGCCAACAACATTGTGCATCGGGATCTGAAAACTGCCAATCTGCTCATCAATGCTTCAGACCAGTTCAAGATA
GCAGACTTTGGTCTGGCCCAGGTCTTTTCTCCTGATGGCAGCCGCCTCTACACACACCAGGTGGCTACCAGGTGGTACCG
AGCCCCTGTGCTCCTGTATGGTGCCCGCCAATATGACCAGGGCGTTGACCTATGGGCTGTGGGCTGCATCATGGGGGAGC
TATTGAATGGGTCCCCTCTTTTCCCCGGAGAGAACGACATTGAACAGCTTTGCTGTGTGCTTCGCATCTTGGGCACCCCT
AGCCCTCAAGTCTGGCCAGAGATCACAGAGCTGCCAGACTACAACAAGATCTCCTTTAAGGAACAGGCGCCAATGCCCCT
GGAGGAGGTCCTGTCAGACGCCTCTCTTCAGGCCTTGGACCTGCTGAGTCAGTTCCTCCTCTACCCTCCTTGCCAGCGCG
TTGCAGCCTCCGAGGCTTTCCTGCATCAATACTTCTTCACAGCTCCCTTTCCCTCCCACCCATCTGAGCTGCCAATTCCC
CAGCGCCCAGGGGGGCCTGCTCCTAAGGCCCACCCGGGACCTCCTCATGTCCATGACTTCCATGTGGACCGGCCTCTTGA
GGAGTCACTGTGGGATCCAGAACTGATTTGGCCCTTTATCCCAGAGGGG
ORF - retro_itri_458 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 92.23 % |
| Parental protein coverage: | 94.33 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | VVQLKAVFPHGAGFVLAFEFMLSDLAEVVRHAQRPLAPAQVKSYLQMLLKGVAFCHANNIVHRDLKPANL |
| VVQLK.V.PHGAGFVLAFEFMLSDLAEVV.HAQRPLAPAQVKSYLQMLLKGVAFCHANNIVHRDLK.ANL | |
| Retrocopy | VVQLKPVYPHGAGFVLAFEFMLSDLAEVVCHAQRPLAPAQVKSYLQMLLKGVAFCHANNIVHRDLKTANL |
| Parental | LISASGQLKIADFGLARVFSPDGSRLYTHQVATRWYRAPELLYGARQYDQGVDLWAVGCIMGELLNGSPL |
| LI.AS.Q.KIADFGLA.VFSPDGSRLYTHQVATRWYRAP.LLYGARQYDQGVDLWAVGCIMGELLNGSPL | |
| Retrocopy | LINASDQFKIADFGLAQVFSPDGSRLYTHQVATRWYRAPVLLYGARQYDQGVDLWAVGCIMGELLNGSPL |
| Parental | FPGENDIEQLCCVLRILGTPSPQVWPEITELPDYNKISFKEQAPVPLGEVLSDASLQALDLLGQFLLYPP |
| FPGENDIEQLCCVLRILGTPSPQVWPEITELPDYNKISFKEQAP.PL.EVLSDASLQALDLL.QFLLYPP | |
| Retrocopy | FPGENDIEQLCCVLRILGTPSPQVWPEITELPDYNKISFKEQAPMPLEEVLSDASLQALDLLSQFLLYPP |
| Parental | RQRIAASQALLHQYFFTAPLPAHPSELPIPQRPGGPASKAHPGPPHVHDFHVDRPLEESLLDPELIRPFI |
| .QR.AAS.A.LHQYFFTAP.P.HPSELPIPQRPGGPA.KAHPGPPHVHDFHVDRPLEESL.DPELI.PFI | |
| Retrocopy | CQRVAASEAFLHQYFFTAPFPSHPSELPIPQRPGGPAPKAHPGPPHVHDFHVDRPLEESLWDPELIWPFI |
| Parental | PKG |
| P.G | |
| Retrocopy | PEG |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.
Ictidomys tridecemlineatus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_itri_458 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_458 was not experimentally validated.
Retrocopy orthology:
Ictidomys tridecemlineatus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ictidomys tridecemlineatus | ENSSTOG00000004663 | 1 retrocopy |
retro_itri_458 ,
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