RetrogeneDB ID:

retro_vvin_107

Retrocopy
location
Organism:Grape (Vitis vinifera)
Coordinates:17:14190572..14191218(-)
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_11s0103g00250
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_vvin_107
ATGTCGTCGTGGTCGGAACTTCAGGTGCGGCTTGAGATATTCTACAGTGACACCGAAGCTCGCATGTATGTTTCCTCTTC
TTAGATCATCGAAATTCAGGCCAAGCTCTCAGAAAGAGCATCGGAGCTGCTTGCTTTGCCCGATAATGGAGTTTCTAGAT
TATTCATTGACATCGATTGTGGACCTGGACTTTGTGGGGACGCGTTGTTTGAGAAAAGACACCAATGGATTGGTTTAGAT
ATCTCAGAGTCAGGGTATATTGTTGCATCAATGTGTGACATTTCATCACTTGGAGACGTGGGTCAAGGTTTAGGACTTTG
ACCAGGAGCCGTTGAAGGTGCTAACAACATCTCAGCCGTTCAGTGGGTATGCAATGTTGACAAGTCTTTACATGAGTCGC
GATAGAGATTGAAGGTTTACTTTGCATCATCATGTAGATATTCAGCAGAGGGAGCAGGAGCAGTGCTCCAAATATATCCT
GAAAATGTTGCCTAATGTGAGTTCAATCTTGGGTTTGCATGTTGGATTTTCTGGTGGTGTGGTTGTCAATTATCCACATA
GAACTAAGAGTAGAAAGGAGTACTTTGTCTTCATTGGTGGCCCACCCTCACTGACCACAGCTGTCCTAGAAACGAAAGTT
GAGGAA

ORF - retro_vvin_107 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.71 %
Parental protein coverage: 75.6 %
Number of stop codons detected: 4
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMSSRPELQAPPEIFYDDTEARKYTSSSRIIEIQAKLSERALELLALPDDGVPRLLLDIGCGSGLSGETLS
MSS..ELQ...EIFY.DTEAR.Y.SSS.IIEIQAKLSERA.ELLALPD.GV.RL..DI.CG.GL.G..L.
RetrocopyMSSWSELQVRLEIFYSDTEARMYVSSS*IIEIQAKLSERASELLALPDNGVSRLFIDIDCGPGLCGDALF
ParentalENGHQWIGLDISESMLNIASERDVDGDLLLGDMGQGLGLRPGVIDGAISISAVQWLCNADKSSHEPRLRL
E..HQWIGLDISES....AS..D......LGD.GQGLGL.PG...GA..ISAVQW.CN.DKS.HE.R.RL
RetrocopyEKRHQWIGLDISESGYIVASMCDISS---LGDVGQGLGL*PGAVEGANNISAVQWVCNVDKSLHESR*RL
ParentalKAFFTSLYRCLARGARAVLQVYPENVAQREL-ILGFAMRAGFSGGVVVDFPHSTRSRKEYFVLTCGPPSL
K..F.S..R..A.GA.AVLQ.YPENVA..E..ILG.....GFSGGVVV..PH.T.SRKEYFV...GPPSL
RetrocopyKVYFASSCRYSAEGAGAVLQIYPENVA*CEF>ILG--LHVGFSGGVVVNYPHRTKSRKEYFVFIGGPPSL
ParentalSTAVPKAKGED
.TAV...K.E.
RetrocopyTTAVLETKVEE

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_107 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_11s0103g00250 1 retrocopy
retro_vvin_107 ,



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