RetrogeneDB ID: | retro_csav_33 | ||
Retrocopy location | Organism: | Pacific transparent sea squirt (Ciona savignyi) | |
| Coordinates: | reftig_7:1855546..1855804(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CSA.5592 | ||
| Ensembl ID: | ENSCSAVG00000009206 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_csav_33
ATGATGTTTAGCCGATTGCTGACAACGTTTAGCCATCAACGGATGCATGTGCGCCAATCTTCAAGCTTCAACAAGTTCCC
AGTTATGAAAGTTCAACCGGTGGGGATCAGCGGAAACTTGATGATGGCGATCGGCCTCACAACGCTTGTGGGCTGCATTT
GCATGGTGCAACGTTCAGGGTTTCTCATTCCGCATACTCCGGGTGTGGGTTTCAATTACAAAAAAGTTCATATCGACCTC
ACAAAACCGATAGGGGAA
ORF - retro_csav_33 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 53.49 % |
| Parental protein coverage: | 96.63 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MIGKQFLRLLKVPQMQARNASSFNKFPVMKVKPTGLDGNVMLAIGMTILVATTYVVQKSGYLIPQTPGVG |
| M.....L.......M..R..SSFNKFPVMKV.P.G..GN.M.AIG.T.LV.....VQ.SG.LIP.TPGVG | |
| Retrocopy | MMFSRLLTTFSHQRMHVRQSSSFNKFPVMKVQPVGISGNLMMAIGLTTLVGCICMVQRSGFLIPHTPGVG |
| Parental | FRYKHLDIDLTTPTSQ |
| F.YK...IDLT.P... | |
| Retrocopy | FNYKKVHIDLTKPIGE |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Ciona savignyi was not studied using RNA-Seq expression data.
Ciona savignyi was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_csav_33 retrocopy.
Ciona savignyi was not studied using FANTOM5 data.
retro_csav_33 was not experimentally validated.
Retrocopy orthology:
Ciona savignyi 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 | |
|---|---|---|---|
| Ciona savignyi | ENSCSAVG00000009206 | 1 retrocopy |
retro_csav_33 ,
|