RetrogeneDB ID: retro_vvin_168

Retrocopy location

• Organism: Grape (Vitis vinifera)
• Coordinates: 7:12997918..12998119(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: VIT_02s0012g00100
• Aliases: None
• Description: None

Sequence

>retro_vvin_168
ACCAAGTGAGTAAAGAAGGTTGGCATTGCTGGGAAATATGGCACTCATTATGGGGATAGTTGGCATAATCAGATTGAGAA
GATGAAAGTCAGTCGACGTAGCAAATGCTTATGTGAATTTTGAGGAAAGTATGCAGTGAAGATAAAAACTGTAGGGATTT
GGGACTGTAAGGTTTGTGGCAAAGATAAAGCAAGCCAAGCT

Alignment

ORF - retro_vvin_168 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.67 %
• Parental protein coverage: 67.68 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TKRTKKAGIVGKYGTRYGASLRKQIKKMEVSQHSKYFCEFCGKYAVKRKAVGIWGCKDCGKVKAGGA
          TK..KK.GI.GKYGT.YG.S...QI.KM.VS..SK..CEF.GKYAVK.K.VGIW.CK.CGK.KA..A
Retrocopy TK*VKKVGIAGKYGTHYGDSWHNQIEKMKVSRRSKCLCEF*GKYAVKIKTVGIWDCKVCGKDKASQA

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Vitis vinifera was not studied using RNA-Seq expression data.

ChIP-Seq

Vitis vinifera was not studied using ChIP-Seq data.

EST

Vitis vinifera was not studied using EST data.

TSS

Vitis vinifera was not studied using FANTOM5 data.

Lab

retro_vvin_168 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_1AL_DF31196A4	1 retrocopy	retro_taes_58,
Vitis vinifera	VIT_02s0012g00100	1 retrocopy	retro_vvin_168 ,