RetrogeneDB ID: retro_zmay_87

Retrocopy location

• Organism: Maize (Zea mays)
• Coordinates: 8:167123784..167124195(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GRMZM2G374030
• Aliases: None
• Description: None

Sequence

>retro_zmay_87
ATTTTGCAGAAAAGGAAGCTCTACTGGGATCAAAAAAAGAAAGGCTGCTTGAACATGCCAACAAGGAAATCTGAGAGGCT
TGCTAAGAGAATGAAACTCATGGCATCATTGCTCCTCACGCAACGGAAAAAGATTGGAGTAGGTGAGCACTTTCAGGCAG
AGGTACCTGGTTGGACTGGGCAACCTTCAGGGAAAGAGCTTTCATGTTACAGGAATGACCCAGAGACATCAAAGATGTTA
GGGACTAGAATGTGGCCTCCTGAGGGTGAAGTTTATAAAACTGACATTGTAGCTGTTGGGCAGGGAAGGCCTGGATCATG
TAATTGCCCCTACCCAGGATCCTTCCTCTGCAGACAGCTCCACACAAATGAAGCAAGAGATCAGCTACGCTCTGAACTTG
GTCGAGTTTTT

Alignment

ORF - retro_zmay_87 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.54 %
• Parental protein coverage: 97.87 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VYKKRKLYWDKQKMKGYLNMPTRKSERLAKRMKLMASLLLTQWKNIGVGGKFGVELPDGIGQPSGKELSR
          ...KRKLYWD....KG.LNMPTRKSERLAKRMKLMASLLLTQ.K.IGVG..F..E.P...GQPSGKELS.
Retrocopy ILQKRKLYWDXXX-KGCLNMPTRKSERLAKRMKLMASLLLTQRKKIGVGEHFQAEVPGWTGQPSGKELSC

Parental  YRSGLETSKMLGTRMWPHEGEVYRTNIVAVGQGRPRSCNCPYLGSFFCTQLHTIEARDQLRSELGQVF
          YR...ETSKMLGTRMWP.EGEVY.T.IVAVGQGRP.SCNCPY.GSF.C.QLHT.EARDQLRSELG.VF
Retrocopy YRNDPETSKMLGTRMWPPEGEVYKTDIVAVGQGRPGSCNCPYPGSFLCRQLHTNEARDQLRSELGRVF

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_87 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	GRMZM2G374030	1 retrocopy	retro_zmay_87 ,