RetrogeneDB ID: retro_vvin_60

Retrocopy location

• Organism: Grape (Vitis vinifera)
• Coordinates: 11:17964333..17964524(-)
• Located in intron of: VIT_11s0052g00550

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: VIT_11s0037g01120
• Aliases: None
• Description: None

Sequence

>retro_vvin_60
GCTGATTTCTAAATCCCTACCACAAATCAGACCAGATATTGTTTCACCTGCTACAATGAGTTTCTCTGGTGCTTGGGTGC
AAAGAACCTGATGAGTAAAAAATTTGCCAAGTACAATAGGTCCCTCTACCTGGGTGAATATATAAAGAATTGAAATAAGC
AGGGGGAGAATGACAAATTCCCGGTCCACTT

Alignment

ORF - retro_vvin_60 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.35 %
• Parental protein coverage: 87.01 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ADFRFPSTNQTRHCFTRYIEFHRCLAAKGEESGDCEKFAKYYRSLCPVEWIEKWNEQRENGTF-PGPL
          ADF..P.TNQTR.CFT.Y.EF..CL.AK...S....KFAKY.RSL...E.I...N.Q.EN..F.PGPL
Retrocopy ADF*IPTTNQTRYCFTCYNEFLWCLGAKNLMS---KKFAKYNRSLYLGEYIKN*NKQGENDKF<PGPL

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_60 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Vitis vinifera	VIT_11s0037g01120	1 retrocopy	retro_vvin_60 ,