RetrogeneDB ID: retro_zmay_20

Retrocopy location

• Organism: Maize (Zea mays)
• Coordinates: 7:152561648..152562974(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: GRMZM2G108615
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GRMZM2G424205
• Aliases: None
• Description: None

Sequence

>retro_zmay_20
ATGGCGGTGGCCAAGAAGCCTACCCGCGCTCTCCCTCATCTCCTCCTCGTAGCCTTCCTCTGCTTGACGTGCTCTGTTTG
TGCTCGCTTCGACGATGACTACGACGACTCGAGGTATGGCCCTGGAGGTTTCGGTCGTGGTCCGGGCTTTGATCGTGGCC
CGAGAGGTGGCTACCGACGCGGTCCGGACTTCGGACGTGGACCGTTTGGTCGTGACTGTCGCTTCGGTCGCTGCCGCAGA
GGTGGTGGCGGACTTGGAGGCGGTGGAGGCGGTGGCCTTGGAGGTGGTGGAGGTGGCGGACTTGGAGGTGGCGGCGGGCT
TGGCGGTGGAGGAGGTGGTGGCCTTGGAGGTGGTGGCGGACTTGGAGGCGGCGGTGGAGGAGGTGGTGGCCTTGGTGGTG
GAGGTGGCGCTGGTGCTGGAGGAGGTTTTGGTGGTGGCGTCGGAGGAGGAGGTGGTGCAGGAGGCGGACTTGGTGGTGGA
GGCGGTGGTGGATTTGGAGGCGGCGGAGGCGGTGGACTCGGAGGTGGTGGAGGCAAAGGTGGCGGCTTTGGTGCTGGCGA
TGGCATCGGAAGCGGAGCTGGTGGTGGCAGTGGACTAGGTGGTGGAGGCGGCGGTGGAATGGGTGGTGGCGGCGGCGGTG
GCCTCGGAGGAGGCGCGGGAGGAGGCTTCGGAGCGGGTGGCGGCGTAGGTGGTGGAGCCGGCGGAGGTGGTGGCCTTGGT
GGCGGTGGAGGTGGAGGGCTTGGAGGAGGCAAGGGTGGAGGCTTTGGGGCCGGCGGTGGTATGGGAGGTGGCGCAGGCGG
AGGTGGCGGACTTGGTAGCGGTGGTGGGCTTGGTGGCGGTGGAGGGCTTGGAGGAGGCAAGGGTGGAGGCTTTGGGGCCG
GCGGTGGTATGGGAGGTGGGGCAGGCGGAGGTGGTGGGCTTGGTGGCGGTGGAGGCGGAGGTTTTGGAGGAGGTAAGGGC
GGAGGCTTTGGAGCCGGCGGTGGTATAGGAGGTGGGGCAGGAGGAGGCGGGGGGCTTGGTGGCGGCGGCGGTGGCATGGG
CGGTGGTGGTGGAGGCGGACTAGGTGGTGGTTCAGGAGGAGGATTCGGTGGCGGGGCAGGCGGTGGCGTTGGAGGAGGAG
GCGGCCTTGGTGGTGGTGGCGGCGGAGGTATGGGCGGTGGAGGCGGCGGCGGCCTTGGACATGGCGTTGGTCTCGGTGGA
GGGGGCGGGGGCGGCCTCGGCATCGGCATTGGCGTTGGCGTCGGAGTCGGGTTGGGCGCGGGGGCAGGCGCAGGCGCAGG
TGGCGGCGCTGGTGCGGGTGCTGTTGCTGGAAACCGCGGGCGTTGA

Alignment

ORF - retro_zmay_20 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.11 %
• Parental protein coverage: 88.79 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GGGDFGAGEGGGFGGGAGGGLGGGFGGGGGLGGGGGAGGGFGGGAGHGGGLGGGFGGGKGGGAGGGGGLG
          GGG..G.G.GGG.GGG.GGGLGGG.G.GGG.GGG.G.GGG.GGG.G.GGGLGGG.G.G.GGG.GGG.G.G
Retrocopy GGGGLGGGGGGGLGGGGGGGLGGGGGLGGGGGGGLGGGGGLGGGGGGGGGLGGGGGAGAGGGFGGGVGGG

Parental  GGVGGGFGGGKGGGLGGGGGLGGGGGAGEGGGLGVGAGGGGGLGGGAGGGFGGGAGGGVGGGGGLGDGAG
          GG.GGG.GGG.GGG.GGGGG.G.GGG.G.GGG.G.G.G.G.G.GGG.G.G.GGG.G.G.GGGGGLG.GAG
Retrocopy GGAGGGLGGGGGGGFGGGGGGGLGGGGGKGGGFGAGDGIGSGAGGGSGLGGGGGGGMGGGGGGGLGGGAG

Parental  GGAGAGSGLGGGAGGGGGLGGGAGGGFGGGAGGGVGGGAGGGAGGGAGAGGGLGGGAGSGVGGGFGGGKG
          GG.GAG.G.GGGAGGGGGLGGG.GGG.GGG.GGG...GAGGG.GGGAG.GGGLG.G.G.G.GGG.GGGKG
Retrocopy GGFGAGGGVGGGAGGGGGLGGGGGGGLGGGKGGGF--GAGGGMGGGAGGGGGLGSGGGLGGGGGLGGGKG

Parental  GGFGGGIGGGGGAGGGAGGGFGGGKGGGFGGGKGGGFGGGAGGGFGGGKGGGFGGGKGGGFGGGAGGGFG
          GGFG.G.G.GGGAGG..GGG.GGG.GGGFGGGKGGGFG.G.G.G.G.G.GGG.GGG.GGG.GGG.GGG.G
Retrocopy GGFGAGGGMGGGAGG--GGGLGGGGGGGFGGGKGGGFGAGGGIGGGAGGGGGLGGG-GGGMGGGGGGGLG

Parental  GGKGGGFGGGAGGGFGGGGGSGGGIGGGL
          GG.GGGFGGGAGGG.GGGGG.GGG.GGG.
Retrocopy GGSGGGFGGGAGGGVGGGGGLGGGGGGGM

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_20 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Zea mays	GRMZM2G424205	1 retrocopy	retro_zmay_20 ,