RetrogeneDB ID: retro_vvin_21

Retrocopy location

• Organism: Grape (Vitis vinifera)
• Coordinates: 18:12205115..12205631(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: VIT_18s0001g14160
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: VIT_10s0003g00530
• Aliases: None
• Description: None

Sequence

>retro_vvin_21
ATGGGCAAGGGAAAGGGAAAAGGAAAGTTGAAGGGCAAATCCGTTGGTATGCGTCAATTCTCCACCGATGAGGAGATTGT
GGCTAGTATCTTTATTCATTCTAGTACTTTCAATCAAGAAGAAATTGAAGGAAAAGAAGAATACTCTGGAGAAGAATTTG
AAGAAGAACCTCGTGAGGTAAGGCGAAAAGGTGTCCAAGGTTTGATTGAGGTTGAGAATCCTAATTGGGGGAAGCCAAAT
GTCTTGAAAGTTAAAGACATTGATGTTGAAAAAATAACTCAACTTTCCAAGCATGAAAAAAATGAAATAGATAAACAGAA
AAGATATGAACGAGGTATGAAATTACACGAGGAAGGGAAAACAGAACAAGCAAAGAAAGATTTAGAACGTTTAACTTTGA
TTCGGCAACAAAGAGTTGATACTGCTAAAAAGCGAGAAGAAGAAAAAGCTTTCAAAGAGAAAAAGAAGGAAGAAAAAGCT
TTCAAAGAGAAAAAGAAGGCCGAGGCTCGCAAATGA

Alignment

ORF - retro_vvin_21 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.01 %
• Parental protein coverage: 97.44 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GRGKFKGKPTGRRQFSTPEEMLAGTSSRPRTFKREEAEVEEEHSEEESEEEPEE-RRKGTQGLIEVENPN
          G.GK.KGK..G.RQFST.EE..A.......TF..EE.E..EE.S.EE.EEEP.E.RRKG.QGLIEVENPN
Retrocopy GKGKLKGKSVGMRQFSTDEEIVASIFIHSSTFNQEEIEGKEEYSGEEFEEEPREVRRKGVQGLIEVENPN

Parental  LVKPKTLKARDIDIEKTTELSRREREEIEKQKAHERYMRLQEQGKTEQAKKDLERLALIRQQRADAAKKR
          ..KP..LK..DID.EK.T.LS..E..EI.KQK..ER.M.L.E.GKTEQAKKDLERL.LIRQQR.D.AKKR
Retrocopy WGKPNVLKVKDIDVEKITQLSKHEKNEIDKQKRYERGMKLHEEGKTEQAKKDLERLTLIRQQRVDTAKKR

Parental  EEEKAAKEQKKAE
          EEEKA.KE.KK.E
Retrocopy EEEKAFKEKKKEE

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_21 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_10s0003g00530	1 retrocopy	retro_vvin_21 ,