RetrogeneDB ID: retro_vvin_22

Retrocopy location

• Organism: Grape (Vitis vinifera)
• Coordinates: 15:10574257..10574605(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: VIT_15s0021g00760
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: VIT_07s0005g06490
• Aliases: None
• Description: None

Sequence

>retro_vvin_22
ATGAAGTACCTGAGGTTCCTCCGCAAGCGCATGAACACCAAACCCTCTCATGGGCCCATCCACTTCCGCGCCCCCTCCAA
GATCCTCTGGCGTACCATCCGTGGGATGATTCCACACAAGACCAAGCGTGGAGCAGCGACCCTTGCACGATTGAAGGCTT
ATGAGGGAATCCCTCCACCATATGATAAGATGAAGAGGATGGTCATTCCTGATGCACTCAAGGTTTTGAGGCTTCAGGCT
GGACACAAGTACTGCTTGCTTGGCCGGCTTTCCTTAGAGGTTGGATGGAACCATTACGATACCATCAGAGAGTTGGAGAA
GAAAAGGAAAGAGAGGCGTTTAGCATAG

Alignment

ORF - retro_vvin_22 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.21 %
• Parental protein coverage: 54.37 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKYLRFLRKRMNTKPSHGPIHFRAPSKILWRTIRGMIPHKTKRGAAALARLKAYEGIPPPYDKMKRMVIP
          MKYLRFLRKRMNTKPSHGPIHFRAPSKILWRTIRGMIPHKTKRGAA.LARLKAYEGIPPPYDKMKRMVIP
Retrocopy MKYLRFLRKRMNTKPSHGPIHFRAPSKILWRTIRGMIPHKTKRGAATLARLKAYEGIPPPYDKMKRMVIP

Parental  DALKVLRLQAGHKYCLLGRLSSEVGWNHYDTIRELEKKRKER
          DALKVLRLQAGHKYCLLGRLS.EVGWNHYDTIRELEKKRKER
Retrocopy DALKVLRLQAGHKYCLLGRLSLEVGWNHYDTIRELEKKRKER

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_22 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
Solanum tuberosum	PGSC0003DMG402015759	1 retrocopy	retro_stub_3,
Vitis vinifera	VIT_07s0005g06490	1 retrocopy	retro_vvin_22 ,