RetrogeneDB ID: retro_vvin_149

Retrocopy location

• Organism: Grape (Vitis vinifera)
• Coordinates: 4:12503661..12503853(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: VIT_09s0002g03480
• Aliases: None
• Description: None

Sequence

>retro_vvin_149
ATGGTACAACTAAGTTAATTGACTCAATACATTGAATCGTACGTTGACTCATCTCGCTCTTCGACTCAGCAGGCTACAAG
CGTGGACGCTATTGCTTACCTTTTGAAGAATGATATATTAACTTTAGAGACACTTGTCAGAGAGATGGGGATGTATTTAT
CCACTACAGATAACATGATTTGTGTAAGAGAT

Alignment

ORF - retro_vvin_149 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.94 %
• Parental protein coverage: 70.33 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAQLSQLTQYIESYVDSSRSSTQQAASVDAIAYLLKNDILTLETLVTEMGMYLTTTDNIIRTRE
          M.QLS.LTQYIESYVDSSRSSTQQA.SVDAIAYLLKNDILTLETLV.EMGMYL.TTDN.I..R.
Retrocopy MVQLS*LTQYIESYVDSSRSSTQQATSVDAIAYLLKNDILTLETLVREMGMYLSTTDNMICVRD

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_149 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 1 parental gene, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Vitis vinifera	VIT_09s0002g03480	11 retrocopies	retro_vvin_106, retro_vvin_149 , retro_vvin_171, retro_vvin_182, retro_vvin_183, retro_vvin_194, retro_vvin_195, retro_vvin_196, retro_vvin_197, retro_vvin_62, retro_vvin_74,