RetrogeneDB ID:

retro_vvin_165

Retrocopy
location
Organism:Grape (Vitis vinifera)
Coordinates:7:3770587..3770974(+)
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_05s0049g00210
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_vvin_165
AAAGAGAGACGCGATTCAAAAGCTTTTCACCAATCGAGCTATGTCCGTACATCAACAGCGTTCGTTTCTTTCGTTGGGTG
GATTCTCTTTGCTTCTGTCTTCTTTCTTTTCATTTGGCAAGAGTTTGATGAATCTGGTGTTGATGGTAGGCCTGTGGCAA
AGTCATTGGCCCCAAAGTTAGATGTTTTCTCTAAACATATGTCAGCTAATGTTGAGGTCCAAGTGTCAGAGGTAGAAATT
AAAAATTTAGTGGTTGCATTTATAACTTTGAAAGGCCTTGAAGGTCTTCTTTTTATCATTAGCAGTTCTCTTGGAGCGCA
TCTCTCGCTTCTTCATTAGGCAATTGGCATTCCTATCTTGTATGACTTTTACAACTATGATGTTGAC

ORF - retro_vvin_165 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.29 %
Parental protein coverage: 56.09 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalRQRRDSKAFHQLSCVRTSMAFVSFVGRVLFASVFILSAWQEFNEFGVDGGPAVESLAPKLDVFSKHVSAN
..RRDSKAFHQ.S.VRTS.AFVSFVG..LFASVF.L..WQEF.E.GVDG.P...SLAPKLDVFSKH.SAN
RetrocopyKERRDSKAFHQSSYVRTSTAFVSFVGWILFASVFFLFIWQEFDESGVDGRPVAKSLAPKLDVFSKHMSAN
ParentalVGVQVPEVEIKNLVAASIALKGLGGLLFIFGSSLGAHLLLLHQAIVIPILYDFYNYDVD
V.VQV.EVEIKNLV.A.I.LKGL.GLLFI..SSLGAHL.LLH.AI.IPILYDFYNYDVD
RetrocopyVEVQVSEVEIKNLVVAFITLKGLEGLLFIISSSLGAHLSLLH*AIGIPILYDFYNYDVD

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_165 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 2 parental genes, and 6 retrocopies.

Species Parental gene accession Retrocopies number
Zea mays AC149475.2_FG0024 retrocopies
Vitis vinifera VIT_05s0049g00210 2 retrocopies
retro_vvin_165 , retro_vvin_52,



Copyright © RetrogeneDB 2014-2017