RetrogeneDB ID: retro_vvin_181

Retrocopy location

• Organism: Grape (Vitis vinifera)
• Coordinates: 9:21278428..21278774(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: VIT_06s0009g02410
• Aliases: None
• Description: None

Sequence

>retro_vvin_181
GTGGCCATCACCTTCTCAGGTCTACACGCTGGGATTGGTCTCCAGTCTCTAAACGAATTCCTCTATGGAAAAGCCTACAT
CGCTAGGGATCATCTAACGAAGGATGATGTAAATGTTTACGCCGTGGTTCCGGAAAAGTCTGGAAGTCACTTCCCAAATG
CAAACAAGCGGTACAGTAGTGTTTCTTCGCATCTTGCCCAAAGAATTCCCCAGAAAAGCTATTGGGGTGAGAGTAGGCTG
CCAAGCTACTCCTGTTGAAGCTACTCCCAATGAAGTGAAGGAGGTTGCTCCTGCCGGAGATGATGACGATGACCTTGATC
TCTTTGGTGATGAAACAGAGAAAGAG

Alignment

ORF - retro_vvin_181 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75. %
• Parental protein coverage: 50.88 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAITFSDLHTEAGLKSLDEFLSGKAYISGGHLTKDDVKVYAAVLEKPGSHFPNASKWYSCVSSHLA-KSF
          .AITFS.LH...GL.SL.EFL.GKAYI...HLTKDDV.VYA.V.EK.GSHFPNA.K.YS.VSSHLA.K.F
Retrocopy VAITFSGLHAGIGLQSLNEFLYGKAYIARDHLTKDDVNVYAVVPEKSGSHFPNANKRYSSVSSHLA>KEF

Parental  PGKAVGVSLGCQAAPVEAAPKEVKEAAPAGDDDDDLDLFGDETEEE
          P.KA.GV..GCQA.PVEA.P.EVKE.APAGDDDDDLDLFGDETE.E
Retrocopy PRKAIGVRVGCQATPVEATPNEVKEVAPAGDDDDDLDLFGDETEKE

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_181 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Vitis vinifera	VIT_06s0009g02410	1 retrocopy	retro_vvin_181 ,