RetrogeneDB ID:

retro_vvin_26

Retrocopy
location
Organism:Grape (Vitis vinifera)
Coordinates:15:2868388..2869672(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:VIT_15s0024g01440
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:VIT_10s0116g00760
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_vvin_26
ATGCTGACTTTGAATCTTGTTCCTTGTAGCAATATCACTTTATCCAAGCCAAAAAGCCATCAGTACTCTATAAATGCTCT
CCACAGGGCTCAGAACCAAGGTGACTTCCACTTGCCTAGGGGTCTGTTCAACAAGCCCAAGTCTCAGGTAATCTCAAACT
TGAGTAGAATCCATGGATACCCTTTTGGGTTTTGTGCAAAACCCAGTTCTCAGATCCATGATACAAGCGCAAAGATCAAA
TCTTTGGACACAACGGGTGAGCACCCATCTGGGGTTGGTGCAAAGCCCAGATCTTGGGTTGCTAAAGCTGCTGAGTTTGA
GGGGGAAAGTGAAGTTTCCAAGCCTAACAAGACCCTTCAACTTGGTATTGTGTTTGGGATGTGGTATTTTCAGAATATTG
TGTTCAATATCTACAACAAGAAGGTGTTGAATCTGTTCCCCTTTCCATGGCTTCTTGCCTCTTTTCAGCTATTTGTTGGG
TCTGTTTGGATGCTCATTCTCTGGTCTTTTAAGCTCCAGCCATGCCCAAAAATCTCAAAACCTTTCATTGTTGCTCTTCT
TGGGCCTGCACTGTTTCACACAATAGGCCACATCTCCGCCTGTGTTTCTTTCTCTAAGGTGGCTGTCTCGTTCACCCATG
TCATCAAATCTTCAGAACCAGTTTTCTCAGTCATTTTCTCAACCATTTTAGGTGATAACACCTACCCTTTACGTGTCTGG
CTTTCAATCCTCCCCATTGTTCTAGGTTGCTCTCTTGCCGCTGTCACCGAAGTCTCCTTCAATTTGCAAGGCCTGTGGGG
GGCTTTGATCAGCAATGTGGGGTTCGTTCTTCGCAACATTTACTCAAAGCGAAGCTTAGAGAGCTTCAAGGAAGTGAATG
GGCTGAATTTATATGGTTGGATCAGTATAATTTCATTGCTGTATCTGTTTCCTGTGGCAATTTTCGTTGAAGGGACTCAA
TGGATTGAAGGGTATCACAGAGCAATCCAAGCAGTGGGAAAACCAACCACATTTTATATATGGGTGATGTTGTCCGGGGT
GTTTTACCATCTCTACAATCAGTCATCATATCAAGCACTTGATGACATTAGCCCACTGACCTTCTCTGTTGGAAACACAA
TGAAGAGGGTGGTAGTGATTGTAGCCACTATTTTGGTGTTCAGAAATCCTGTTAAGCCTTTGAATGCGCTTGGATCTGCC
ATTGCGATTTTTGGGACTTTCTTGTATTCGCAGGCAACATCCAAGAAAAGCCCAAAGAAAATTGAAGGTGAAAAGAGTAG
TTAA

ORF - retro_vvin_26 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 54.37 %
Parental protein coverage: 77.86 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalELSDQEARSEAAQKLKIGIYFATWWALNVVFNIYNKKVLNAFPYPWLTSTLSLATGSLMMLISWAVRIAE
E.......S.....L..GI.F..W...N.VFNIYNKKVLN.FP.PWL.....L..GS..MLI.W......
RetrocopyEFEGESEVSKPNKTLQLGIVFGMWYFQNIVFNIYNKKVLNLFPFPWLLASFQLFVGSVWMLILWSFKLQP
ParentalPPKTDLDFWKTLFPVAVAHTIGHVAATVSMSKVAVSFTHIIKSGEPAFSVLVSRFLLGETFPVPVYFSLL
.PK....F...L...A..HTIGH..A.VS.SKVAVSFTH.IKS.EP.FSV..S..L...T.P..V..S.L
RetrocopyCPKISKPFIVALLGPALFHTIGHISACVSFSKVAVSFTHVIKSSEPVFSVIFSTILGDNTYPLRVWLSIL
ParentalPIIGGCALAAVTELNFNMTGFMGAMISNLAFVFRNIFSKRGMKG-KSVGGMNYYACLSMLSLLILTPFAI
PI..GC.LAAVTE..FN..G..GA.ISN..FV.RNI.SKR.....K.V.G.N.Y...S..SLL.L.P.AI
RetrocopyPIVLGCSLAAVTEVSFNLQGLWGALISNVGFVLRNIYSKRSLESFKEVNGLNLYGWISIISLLYLFPVAI
ParentalAVEGPQMWAAGWQKAISQIG--PNFIWWVAAQSVFYHLYNQVSYMSLDQISPLTFSIGNTMKRISVIVSS
.VEG.Q.W..G...AI...G....F..WV....VFYHLYNQ.SY..LD.ISPLTFS.GNTMKR..VIV..
RetrocopyFVEGTQ-WIEGYHRAIQAVGKPTTFYIWVMLSGVFYHLYNQSSYQALDDISPLTFSVGNTMKRVVVIVAT
ParentalIIIFHTPVQPINALGAAIAILGTFLYSQA
I..F..PV.P.NALG.AIAI.GTFLYSQA
RetrocopyILVFRNPVKPLNALGSAIAIFGTFLYSQA

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_26 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 4 parental genes, and 4 retrocopies.

Species Parental gene accession Retrocopies number
Amborella trichopoda AMTR_s00062p000362201 retrocopy
Musa acuminata GSMUA_Achr7G03380_0011 retrocopy
Physcomitrella patens PP1S70_177V61 retrocopy
Vitis vinifera VIT_10s0116g00760 1 retrocopy
retro_vvin_26 ,



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