RetrogeneDB ID: retro_vvin_14

Retrocopy location

• Organism: Grape (Vitis vinifera)
• Coordinates: 13:10033912..10034323(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: VIT_13s0106g00400
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: VIT_02s0154g00500
• Aliases: None
• Description: None

Sequence

>retro_vvin_14
ATGGGGAAGCTTCTAAGCATCGAACCTTTGGAACGTAAGTTCCCTTTCGAACTGAAGAAGCAGATCTCTTGTTCTCTTCA
ATTACCGAATAAGATCGAGAACCATGTAGTTTTCAAGGTGAAAACAATGAATTCGAAGAAGTATCATGTTCATCTGAATA
CCAGAATTGTCTTGCCTCGGTCTACATGTGATGTCATAGTTACCATGCGAGCACAGAAGGAGGCTCCTTCTAATCTGCAC
TACAAAGACAAGTTTCTCATTCGAAGTGCAGTTCTCATTGCTGGCATGAGCCAAACGGATATTACTGTAGATATGCTTAA
TAAGGATTCGGGTCATATTGTTAAGGAATGCAAGTTGAAAGTGGTTTATGTTTCTCCCCCTCAACCACCATCACCAGTTC
CTGAAGGATGA

Alignment

ORF - retro_vvin_14 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.96 %
• Parental protein coverage: 56.72 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GELLSIEPLELKFPFELKKQISCSLQLSNKTENHVVFKVKTTNPKKYCVRPNTGIVLPRSTCDILVTMQA
          G.LLSIEPLE.KFPFELKKQISCSLQL.NK.ENHVVFKVKT.N.KKY.V..NT.IVLPRSTCD..VTM.A
Retrocopy GKLLSIEPLERKFPFELKKQISCSLQLPNKIENHVVFKVKTMNSKKYHVHLNTRIVLPRSTCDVIVTMRA

Parental  QKEAPSDLHCKDKFLLQSAVVTAGTSQTDITADMFNKDSGHIVEECKLKVVYVSPPQPPSPVPEG
          QKEAPS.LH.KDKFL..SAV..AG.SQTDIT.DM.NKDSGHIV.ECKLKVVYVSPPQPPSPVPEG
Retrocopy QKEAPSNLHYKDKFLIRSAVLIAGMSQTDITVDMLNKDSGHIVKECKLKVVYVSPPQPPSPVPEG

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_14 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_02s0154g00500	1 retrocopy	retro_vvin_14 ,