RetrogeneDB ID:

retro_vvin_61

Retrocopy
location
Organism:Grape (Vitis vinifera)
Coordinates:12:9814730..9815258(+)
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_18s0001g12300
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_vvin_61
ATGGAAAACTGTCAACATTCAGAGTTTCAGCATGGTTCTGAAAGGCTATTTTCTACCAGAAAAGTAATTTCTCCAACTTC
TCAGGAAAGGCTATGTCGGGCTATGAATTCCACCGACTTGTGTGATAACCTGGAACCATACAAATGTAAAATTAAGTTAC
GCTTTGCAAAACGGACTGAGGGCAGGACTTCATCAGCAGAACCAAATTTTGTGAGAGATGAAGTAGATATTGGTCCGAGA
GGGTGTGAACAAAGCAATAGAAATGAAGGCACTGTTATTTCCAAGCAGAGCATTAGGAGAAGAAAGAATGATATGAAATG
TTCCCATCCTAAAGGCATTCTCAAGATTCCCCAGCTTTCTCGTGGGCTACCACATCTTAGCAATACATGTACCTCCAGCC
AAAGTTATTCAGAGTGTCGTTGCATTCTCACAGAGACGGATGCATGACATTGAATGTCTTGCAACAAAGCTCACGAGAGA
GTTGAAATCCACACACAGGACACAAAATCAAAACAACAACTCCATAGC

ORF - retro_vvin_61 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.3 %
Parental protein coverage: 62.95 %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMENYQHSELQHGPERLFSTRKAISPTSQERLCRAMNSIDLCDNLEPYECKIKLRFAKRTEGRTSSAEPDF
MEN.QHSE.QHG.ERLFSTRK.ISPTSQERLCRAMNS.DLCDNLEPY.CKIKLRFAKRTEGRTSSAEP.F
RetrocopyMENCQHSEFQHGSERLFSTRKVISPTSQERLCRAMNSTDLCDNLEPYKCKIKLRFAKRTEGRTSSAEPNF
ParentalVGDEVDIGPGGPEQSSRNEVTVISKQSIRRRKNDMKGSHPKGILKVPQLSRGLPHLSNTCTSSQSYSQSA
V.DEVDIGP.G.EQS.RNE.TVISKQSIRRRKNDMK.SHPKGILK.PQLSRGLPHLSNTCTSSQSYS...
RetrocopyVRDEVDIGPRGCEQSNRNEGTVISKQSIRRRKNDMKCSHPKGILKIPQLSRGLPHLSNTCTSSQSYSECR
ParentalISFSQRQM-HDIECLAAKLTRELKSMKDIVEETMHS
.........H...C..A....E............HS
RetrocopyCILTETDA*H*MSCNKAHERVEIHTQDTKSKQQLHS

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_61 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 3 retrocopies.

Species Parental gene accession Retrocopies number
Vitis vinifera VIT_18s0001g12300 3 retrocopies
retro_vvin_147, retro_vvin_174, retro_vvin_61 ,



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