RetrogeneDB ID: | retro_ttru_1704 | ||
Retrocopy location | Organism: | Dolphin (Tursiops truncatus) | |
| Coordinates: | scaffold_86814:52221..52845(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CDT1 | ||
| Ensembl ID: | ENSTTRG00000004567 | ||
| Aliases: | None | ||
| Description: | chromatin licensing and DNA replication factor 1 [Source:HGNC Symbol;Acc:24576] |
Retrocopy-Parental alignment summary:
>retro_ttru_1704
GTCACCCTTTCTGAGCTCAAGTCTTGCCTGCAGTGGGCGCAGGAGCTGGGGGCACGGGTCCAGGAGCTGAAGGCAAGTGC
ACAGAAGAATGCTGGGGAACCCAGAGCACCGGAGGACAAGGGGCACCCAGCGGGGCTACGTGGTGAGCAGATGCCTGCCT
ATCAGCGCTTCCTCGCCCTGGCCCAGCAGGGGCCCCTGGGCCTTGTGCTGCCCTACAAGTACCAGGTGCTGGCCGAGATG
TTCTGCTGCATGGACACCATCGTGGGCATGCTTTACAACCGCTCTGTGACTGTGACCTTTGCCAGGGTCAAGCAGGGAGT
CCAGGACATGATGCACAAGCGCTTTGAGGAGCGCAGTGTGGGCCGGATCAAAACCGTGTACCCTGGCTCCTACTGCTTCC
ACCAGGAGCGCTACGCCACCACATTCAAGGACGATGGCAGGAGGTCTGATTACCAGCTCACCATCGAGCCGCTGCTGGAC
CAGCAGGCTGGCAGTGTGGCTCCCCAGCTCACGGCATCGCGCCTGCTGCGGTGGTGCCAGATCTTCAGCCAGAATCTGGT
AGCCCGTGTCCGGTAGTATCACAGGGCCTTCCTGGCCTCCCTGAAACCCCCCCACCCCCCGCCG
ORF - retro_ttru_1704 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.85 % |
| Parental protein coverage: | 55.91 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | VSLSELTSCLQRTQELGARVQELKASAQKNAGEPSAPEDEGHPAGLCGEQMPAYQRFHALAQPGPPGLGL |
| V.LSEL.SCLQ..QELGARVQELKASAQKNAGEP.APED.GHPAGL.GEQMPAYQRF.ALAQ.GP.GL.L | |
| Retrocopy | VTLSELKSCLQWAQELGARVQELKASAQKNAGEPRAPEDKGHPAGLRGEQMPAYQRFLALAQQGPLGLVL |
| Parental | PYKYQVLAEMFRSMDTIVSMLYNRSETVTFTKVKQGVQDMMHKRFEERNVGQIKTVYPGSYRFRQEHHIP |
| PYKYQVLAEMF..MDTIV.MLYNRS.TVTF..VKQGVQDMMHKRFEER.VG.IKTVYPGSY.F.QE.... | |
| Retrocopy | PYKYQVLAEMFCCMDTIVGMLYNRSVTVTFARVKQGVQDMMHKRFEERSVGRIKTVYPGSYCFHQERYAT |
| Parental | TFKDGVRRSDYQLTIEPLLDQQAGSAAPRLTASHLLQRRQVFTQKLVARVREHHRAFLASLNPPMEVP |
| TFKD..RRSDYQLTIEPLLDQQAGS.AP.LTAS.LL...Q.F.Q.LVARVR..HRAFLASL......P | |
| Retrocopy | TFKDDGRRSDYQLTIEPLLDQQAGSVAPQLTASRLLRWCQIFSQNLVARVR*YHRAFLASLKXXXXXP |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Tursiops truncatus was not studied using RNA-Seq expression data.
Tursiops truncatus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ttru_1704 retrocopy.
Tursiops truncatus was not studied using FANTOM5 data.
retro_ttru_1704 was not experimentally validated.
Retrocopy orthology:
Tursiops truncatus 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Myotis lucifugus | ENSMLUG00000003204 | 1 retrocopy | |
| Tursiops truncatus | ENSTTRG00000004567 | 1 retrocopy |
retro_ttru_1704 ,
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