RetrogeneDB ID: retro_vvin_25

Retrocopy location

• Organism: Grape (Vitis vinifera)
• Coordinates: 7:11583220..11583436(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: VIT_07s0005g06430
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: VIT_08s0105g00510
• Aliases: None
• Description: None

Sequence

>retro_vvin_25
ATGGCTGGAGGGAATTTCATGCACAGGGTTATATCTTACGTTGTGAATGAGGTCCTTGTAAACAGTCTTGCCAACAGCCC
TGCTTTTCAGATATTTGCCGTGAGGACATCCAGAAGGATGGAAGATATCTCAAATAAGGCTGCACAGAAGAGGCAGGAAC
TTGCTGAGCAGGTGAAGGAGTTGTCAAAGAATTTTGAGTCACCCAAAAATCAGTGA

Alignment

ORF - retro_vvin_25 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.59 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAGGNFMHRVISYVVNEVLVNSLANSPAFQRFAVRTSRRMEDISNKAAQKRQELAEQVKELSKNFESPKN
          MAGGNFMHRVISYVVNEVLVNSLANSPAFQ.FAVRTSRRMEDISNKAAQKRQELAEQVKELSKNFESPKN
Retrocopy MAGGNFMHRVISYVVNEVLVNSLANSPAFQIFAVRTSRRMEDISNKAAQKRQELAEQVKELSKNFESPKN

Parental  Q
          Q
Retrocopy Q

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_25 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Solanum tuberosum	PGSC0003DMG400011024	1 retrocopy	retro_stub_151,
Vitis vinifera	VIT_08s0105g00510	3 retrocopies	retro_vvin_12, retro_vvin_17, retro_vvin_25 ,