RetrogeneDB ID: | retro_itri_1874 | ||
Retrocopy location | Organism: | Squirrel (Ictidomys tridecemlineatus) | |
| Coordinates: | JH394305.1:59128..59950(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSSTOG00000013880 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TRIB2 | ||
| Ensembl ID: | ENSSTOG00000002702 | ||
| Aliases: | None | ||
| Description: | tribbles homolog 2 (Drosophila) [Source:HGNC Symbol;Acc:30809] |
Retrocopy-Parental alignment summary:
>retro_itri_1874
CATTGCGTTTCTTGCATCGGAAAATACTTATTGTTGGAACCTCTGGAGGGAGACCACGTTTTTCGTGCTGTGCATCTGCA
CAGCGGAGAGGAACTGGTGTGCAAGGTGTTTGAGATCAGCTGCTACCAGGAGTCCCTGGCCCCCTGCTTTTGCTTGTCTG
CCCACAGCAACATCAACCAAATCACGGAGATCCTCCTGGGCGAGACCAAAGCCTATTTGTTCTTTGAGCGAAGCTATGGG
GACATGCATTCCTTTGTGCGTACCTGCAAGAAGCTGAGGGAGGAGGAGGCAGCCAGACTGTTCTACCAGATCGCTTTGGC
CGTGGCCCACTGTCACAACGGGGGCCTTGTGCTGCGGGACCTCAAGCTGCGGAAATTCATCTTCAAGGATGAAGAGCGGA
TTCGGGTGAAGCTGGAAAGTCTGGAAGATGCCTACATCCTTCGGAGAGACGACGACTCCCTGTCCGACAAGCACGGGTGC
CCGGCCTATGTCAGCCCCGAGATCCTGAACACCAGCGGCAGCTACTCGGGCAAGGCCACGGACGTGTGGAGCTTGGGAGT
GATGCTGTACACCATGTTGCTGGGCCGCTACCCTTTCCATGACATTGAGCCCAGTTCCCTCTTCAGCAAGATCCGCCGTG
GCCAGTTCAATATTCCAGAGACTCTGTCGCCCAAGGCCAAGTGCCTCAACCGCAGCATCCTGCGGAGGGAGCCCTCTGAG
CGGCTGACCTCGCAGGAAATCCTGGACCACCCTTGGTTTTCTACAGATTTTAGTGTCTCGAATTCGGGCTGTGGTGCTAA
GGAGGCGTCGGACAAGCTGGTG
ORF - retro_itri_1874 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 96.35 % |
| Parental protein coverage: | 79.88 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | HCVSCIGKYLLLEPLEGDHVFRAVHLHSGEELVCKVFEISCYQESLAPCFCLSAHSNINQITEILLGETK |
| HCVSCIGKYLLLEPLEGDHVFRAVHLHSGEELVCKVFEISCYQESLAPCFCLSAHSNINQITEILLGETK | |
| Retrocopy | HCVSCIGKYLLLEPLEGDHVFRAVHLHSGEELVCKVFEISCYQESLAPCFCLSAHSNINQITEILLGETK |
| Parental | AYVFFERSYGDMHSFVRTCKKLREEEAARLFYQIASAVAHCHDGGLVLRDLKLRKFIFKDEERTRVKLES |
| AY.FFERSYGDMHSFVRTCKKLREEEAARLFYQIA.AVAHCH.GGLVLRDLKLRKFIFKDEER.RVKLES | |
| Retrocopy | AYLFFERSYGDMHSFVRTCKKLREEEAARLFYQIALAVAHCHNGGLVLRDLKLRKFIFKDEERIRVKLES |
| Parental | LEDAYILRGDDDSLSDKHGCPAYVSPEILNTSGSYSGKAADVWSLGVMLYTMLVGRYPFHDIEPSSLFSK |
| LEDAYILR.DDDSLSDKHGCPAYVSPEILNTSGSYSGKA.DVWSLGVMLYTML.GRYPFHDIEPSSLFSK | |
| Retrocopy | LEDAYILRRDDDSLSDKHGCPAYVSPEILNTSGSYSGKATDVWSLGVMLYTMLLGRYPFHDIEPSSLFSK |
| Parental | IRRGQFNIPETLSPKAKCLIRSILRREPSERLTSQEILDHPWFSTDFSVSNSGYGAKEASDQLV |
| IRRGQFNIPETLSPKAKCL.RSILRREPSERLTSQEILDHPWFSTDFSVSNSG.GAKEASD.LV | |
| Retrocopy | IRRGQFNIPETLSPKAKCLNRSILRREPSERLTSQEILDHPWFSTDFSVSNSGCGAKEASDKLV |
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_1874 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_1874 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 | ENSSTOG00000002702 | 1 retrocopy |
retro_itri_1874 ,
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