RetrogeneDB ID: | retro_vvin_54 | ||
Retrocopy location | Organism: | Grape (Vitis vinifera) | |
| Coordinates: | 11:18489918..18490275(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | VIT_05s0020g04110 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_vvin_54
ACTGCCATGCAATCCACCCTTGCAACAGCTATGACACATGTAGCCAACAAAACCAAAGCACTCCAAGTTGTTCCTTCCAG
GTTGGTGCTATGTCTTCAAAGAAGTGTTGTGCAGGTGCGGTGCACCAAGGAGGATGGCCAAAGCGATCAACCACTGCCTG
TCACCACCAACTCCTAGCAGCCACCCTTACTCTCACAGTCACCTCAACTAATCCCTTCTCCTCCTCCTCCTCCCTTGCCC
AAGGTGAGCACCAAATTTGGGGATGTATTCTGGTTTAATGGGCCGACACTGGAGAGGATCAACGACAGGCTTGCCATGGT
AGGCTTTGTTACGGCAATGAGTGCGAAAATATGGAGG
ORF - retro_vvin_54 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 75.63 % |
| Parental protein coverage: | 60.41 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | TTMQSTLATAMTRVANRTRDLQVVPPRSVLRLQRSAVQVRCTKEDGQIERPPPVTTNPQQPPSLSQSRQP |
| T.MQSTLATAMT.VAN.T..LQVVP.R.VL.LQRS.VQVRCTKEDGQ...P.PVTTN..QPP.LSQS.Q. | |
| Retrocopy | TAMQSTLATAMTHVANKTKALQVVPSRLVLCLQRSVVQVRCTKEDGQSDQPLPVTTNS*QPPLLSQSPQL |
| Parental | IPPPPPPPAPKVSTKFGDVFAFSGPAPERINGRLAMVGFVAAMGAEIWK |
| IP.PPPPP.PKVSTKFGDVF.F.GP..ERIN.RLAMVGFV.AM.A.IW. | |
| Retrocopy | IPSPPPPPLPKVSTKFGDVFWFNGPTLERINDRLAMVGFVTAMSAKIWR |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Vitis vinifera was not studied using RNA-Seq expression data.
Vitis vinifera was not studied using ChIP-Seq data.
Vitis vinifera was not studied using EST data.
Vitis vinifera was not studied using FANTOM5 data.
retro_vvin_54 was not experimentally validated.
Retrocopy orthology:
Vitis vinifera 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 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Vitis vinifera | VIT_05s0020g04110 | 2 retrocopies |
retro_vvin_169, retro_vvin_54 ,
|