RetrogeneDB ID: retro_zmay_69

Retrocopy location

• Organism: Maize (Zea mays)
• Coordinates: 5:116376815..116377097(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GRMZM2G123495
• Aliases: None
• Description: None

Sequence

>retro_zmay_69
AAGAGCCGCCTCAATCGCCTCCTGTCTGCCTGCGTTGGCGACATGGTCATGGCCACCGTCAAGGGGAAGCCCGACCTCAG
GAAGAAGGTGATGCCCGCCGTCATCGTCCGCCAACGCAAGCTGTGGTGCCGCAAGGACGGTGTCTACATGTACTTTGAAG
ATAATGCTGGAGTGATTGTGAATCCCAAGGCTGAGATGAAAGGTTCCACTATCATTTGACCTATTGGCAAGGAGTGTGCT
GATCTTTGGCCTAGGATTGCTAGTGCAGCAAACACCATCATA

Alignment

ORF - retro_zmay_69 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.47 %
• Parental protein coverage: 67.86 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KGRLNRLPSACVGDMVMATVKKGKPDLRKKVMPAVIVRQRKLWRRKDGVYMYFEDNAGVIVNPKGEMKGS
          K.RLNRL.SACVGDMVMATV.KGKPDLRKKVMPAVIVRQRKLW.RKDGVYMYFEDNAGVIVNPK.EMKGS
Retrocopy KSRLNRLLSACVGDMVMATV-KGKPDLRKKVMPAVIVRQRKLWCRKDGVYMYFEDNAGVIVNPKAEMKGS

Parental  AITGPIGKECADLWPRIASAANAIV
          .I..PIGKECADLWPRIASAAN.I.
Retrocopy TII*PIGKECADLWPRIASAANTII

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_69 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Glycine max	GLYMA03G32380	1 retrocopy	retro_gmax_1,
Zea mays	GRMZM2G123495	2 retrocopies	retro_zmay_36, retro_zmay_69 ,