RetrogeneDB ID:

retro_vvin_118

Retrocopy
location
Organism:Grape (Vitis vinifera)
Coordinates:18:18825946..18826691(-)
Located in intron of:VIT_18s0157g00050
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:VIT_07s0197g00010
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_vvin_118
ATGGTGAGGTGGTGGGGTGCCACTGCTGGCCGCCTGAGAACAGCAGTATTGAACCATAGGTCATTGTTTCTCTCATCATC
CCCTCCAGCTGCTGTGTATCACACAATCCAAGCCATTCCTTGAGAGTGCACCGGGAGCAATATCTCCACAAGAGATAGAG
CCTAAGGTCAAATCCCGGCTGTGTTCACCCAACAACACCTTACTGGAAGGCAAGATCAATGGCAGATAGGTGTTAAGAGG
AAGCATCTCCTGATCACTGAGAGGAAGCAGATTCAGGCCATACTCAAGTCTATAGAACCAGAGTTTTTGCTCTACAATGT
TTCCGCTCCAGAAACATGCCGGGTCTGGATCATCCACCACCCTCCAATCTGGAACAGTCCTTCCTCTCAAGACTCATAAG
GATAAAGTAACAGGAAAGGTTTTGAACTTGGTGTTTACTTGGGCTGATGAGGGATCAGAGTTGAAGGTTGGTGTGCCTCT
TGTTTTCAAAGGAGAAGGCGTCTGTTCTGGTCTCAAGAAAGGGGGCAACCTGAACAGGATTAAGGCCTAGTTTGAAATAC
CTATGCCTGGCTGAACACATCCCTTCAAAAATTGAGCTAGATGTGAGCAACCTAGATACTGGGGATAGAATACTCATGCA
CGCTGTACAGGTTCATCCTTCCCTGAAGCTTTTAAGCAAGAATGAGACAATGCCAGTTTGTAAGATTGTGCAGCAAAGTT
GGAGAAAGCAGAATCTCGAGAGGTA

ORF - retro_vvin_118 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.41 %
Parental protein coverage: 100. %
Number of stop codons detected: 5
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMSRWWGAAAGRLRTAVSNPRSLYLSSSPPAAAYHTIQAISREFTGSKVSARDRAQGRIPAVVFAQQLLTG
M.RWWGA.AGRLRTAV.N.RSL.LSSSPPAA.YHTIQAI..E.TGS..S.RDRA.G.IPAV.F.QQ.LTG
RetrocopyMVRWWGATAGRLRTAVLNHRSLFLSSSPPAAVYHTIQAIP*ECTGSNISTRDRA*GQIPAV-FTQQHLTG
Parental-GNINGRSVSRKRLLTTERKQIQAILKSVEPEFICSTTFPLQIRAGSGSSVLLESGTVLPLKIHRDEATG
.G.INGR.V.R.......R........S......CST.FPLQ..AGSGSS..L.SGTVLPLK.H.D..TG
Retrocopy>GKINGR*VLRGSIS*SLRGSRFRPYSSL*NQSFCSTMFPLQKHAGSGSSTTLQSGTVLPLKTHKDKVTG
ParentalKVLNLVFAWADEGSELKVDVPLVFKGEDVCPGLKKGGYLNRI-RPSLKFLCPAEHIPSKIEVDVSNLDIG
KVLNLVF.WADEGSELKV.VPLVFKGE.VC.GLKKGG.LNRI.RPSLK.LC.AEHIPSKIE.DVSNLD.G
RetrocopyKVLNLVFTWADEGSELKVGVPLVFKGEGVCSGLKKGGNLNRI>RPSLKYLCLAEHIPSKIELDVSNLDTG
ParentalDRILMHDVEVHPSLKLLSKNETMPVCKIV-AAKLERAESGEV
DRILMH.V.VHPSLKLLSKNETMPVCKIV.AAKLE.AES.EV
RetrocopyDRILMHAVQVHPSLKLLSKNETMPVCKIV<AAKLEKAESREV

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_118 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 1 retrocopy.

Species Parental gene accession Retrocopies number
Vitis vinifera VIT_07s0197g00010 1 retrocopy
retro_vvin_118 ,



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