RetrogeneDB ID: retro_zmay_35

Retrocopy location

• Organism: Maize (Zea mays)
• Coordinates: 1:5872407..5872620(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GRMZM2G703445
• Aliases: None
• Description: None

Sequence

>retro_zmay_35
ATGCATGGCAATGGCAACCGGAACATGGAAATTATGGACCCCCTCCACCATTAGTCGAAGTACCACCATCGATCATGTAT
GGATATGAAAACTATGGACCCCCTCCATCACCATATTCAAATCTATCAAATATGTATCCAACAGGACCATAGTATGGGTA
TAGACAAGTTCTCGCTGCACCGGTATGTTATTTTTGCTTTGTGGATAAGTATT

Alignment

ORF - retro_zmay_35 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.75 %
• Parental protein coverage: 76.84 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MHGNGNRVKEPMDPLYHQAKHHHRSCTGMETMDLLHHHIQIYQICIHRDHNMGMDKFPLHRSITISMTDW
          MHGNGNR..E.MDPL.H..K.HHRSC..M.TMD.LHHHIQIYQICI..DH.MG.DKF.LHR........W
Retrocopy MHGNGNRNMEIMDPLHH*SKYHHRSCMDMKTMDPLHHHIQIYQICIQQDHSMGIDKFSLHRYVIFAL--W

Parental  INI
          I.I
Retrocopy ISI

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Zea mays was not studied using RNA-Seq expression data.

ChIP-Seq

Zea mays was not studied using ChIP-Seq data.

EST

Zea mays was not studied using EST data.

TSS

Zea mays was not studied using FANTOM5 data.

Lab

retro_zmay_35 was not experimentally validated.

Homology

Retrocopy orthology:

Zea mays 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Zea mays	GRMZM2G703445	2 retrocopies	retro_zmay_35 , retro_zmay_44,