RetrogeneDB ID: | retro_itri_67 | ||
Retrocopy location | Organism: | Squirrel (Ictidomys tridecemlineatus) | |
| Coordinates: | JH393294.1:17009435..17009804(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSSTOG00000020260 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | VAMP1 | ||
| Ensembl ID: | ENSSTOG00000007482 | ||
| Aliases: | None | ||
| Description: | vesicle-associated membrane protein 1 (synaptobrevin 1) [Source:HGNC Symbol;Acc:12642] |
Retrocopy-Parental alignment summary:
>retro_itri_67
GCTCCCCGGCCTCCTCAGCCCGCTGCGCAGCTCCGTGGACCCTCGCCCGCTGCCAAAATGTCTGCAGGTGCGCCTGCAGG
TTCCAGTGCTGCCACTGGCAGTAATCGGAGAATTCAACAGACACAAAATCAAGTAGATGAGGTGGTGGACATAATGAGAG
TCAACGTGGACAAGGTGCTAGAAAGAGACCAGAAGCTCTCTGAGCTGGATGACCGTGCAGATGCGTTGCAGGCAGGAGCT
TCTCAATTTGAGACAAGTGCTGCCAAGTTAAAGAGAAAATATTGGTGGAAGAATTGCAAGATGTGGGCAGTAGGGATCAG
CGTTCTGATCATTATCGTCATCATCATCATTGTATGGAGCGTCTCTTAA
ORF - retro_itri_67 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.26 % |
| Parental protein coverage: | 82.91 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | GAPPGPPPNTTSNRRLQQTQAQVEEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFESSAAKLKR |
| GAP.G....T.SNRR.QQTQ.QV.EVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFE.SAAKLKR | |
| Retrocopy | GAPAGSSAATGSNRRIQQTQNQVDEVVDIMRVNVDKVLERDQKLSELDDRADALQAGASQFETSAAKLKR |
| Parental | KYWWKNCKMMIMLGAICAIIVVVIVIY |
| KYWWKNCKM.........IIV..I... | |
| Retrocopy | KYWWKNCKMWAVGISVLIIIVIIIIVW |
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_67 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_67 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Echinops telfairi | ENSETEG00000002527 | 1 retrocopy | |
| Ictidomys tridecemlineatus | ENSSTOG00000007482 | 1 retrocopy |
retro_itri_67 ,
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