RetrogeneDB ID: retro_zmay_22

Retrocopy location

• Organism: Maize (Zea mays)
• Coordinates: 5:38223810..38224662(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: GRMZM2G432926
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GRMZM2G014914
• Aliases: None
• Description: None

Sequence

>retro_zmay_22
ATGGATACTTGTCATCAATCCATAGAGACCGCAGATGGCAAGAAGGACTACAGTGACCCTGTCCCAGCACCATTCGTGAA
CGCCGGCGAGCTGGGCAAGTGGTCCCTGTACCGCGCCGTCATCGCCGAGTTCGTGGCCACGCTGCTCTTCGTGTACGTCA
CGCTGGCCACCGTCATCGGGCACAAGCGCGAGGCCGAGTCCCAGCCGTGCGGCAGCGTCGGCGTGCTGGGCATCGCCTGG
TCCTTCGGCGGCATGATCTTCGTGCTCGTCTACTGCATCGCCGGCATCTCCGGCGGCCACATTAACCCGGCGGTCACCTT
CGGCCTGCTGCTGGCGCGCAAGCTGTCGCTGGTGCGCGCCGCGCTCTACGTGGTCGCGCAGTGCCTGGGCGCCATGTGCG
GCGCCGGCCTCGTCAAGGCCTTCCACGGCGCCCACTGGTACCTTCGCTACGGCGGCGGAGCCAACGAGCTCGCCGCCGGC
TACTCCAAGGGAGCCGGTCTGGGCGCCGAGATCGTGGGCACCTTCGTCCTCGTCTACACCGTGTTCTCGGCCACCGACCC
CAAGCGCAAGGTCAGGGATTCGCACGTCCCGGTCCTGGCGCCGCTGCCCATCGGATTCGCGGTGTTCATGGTGCACCTGG
CCACCATCCCCGTCACCGGCACGGGCATCAACCCGGCAAGGAGCCTGGGGCCGGCCGTTGTGTACAACCAGCGAAAGGCG
TGGGAGGATCACTGGATATTCTGGGTCGGCCCACTCATCGGCGCCGCCGCCGCCATGCTCTACCACCAGTTGGTCCTCCG
CGCCGGCGCAGCCAAGGCCTTCGCGTCCTTTCGCAACAACCAGCACTTCTGA

Alignment

ORF - retro_zmay_22 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.21 %
• Parental protein coverage: 93.45 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KDYTDPPPAPLIDAAELGSWSLYRAVIAEFIATLLFLYITVATVIGYKHQTDASASGADAACGGVGVLGI
          KDY.DP.PAP...A.ELG.WSLYRAVIAEF.ATLLF.Y.T.ATVIG..H...A........CG.VGVLGI
Retrocopy KDYSDPVPAPFVNAGELGKWSLYRAVIAEFVATLLFVYVTLATVIG--HKREAESQ----PCGSVGVLGI

Parental  AWAFGGMIFVLVYCTAGISGGHINPAVTFGLFLARKVSLVRALLYIVAQCLGAICGVGLVKAFQSAY-FD
          AW.FGGMIFVLVYC.AGISGGHINPAVTFGL.LARK.SLVRA.LY.VAQCLGA.CG.GLVKAF..A....
Retrocopy AWSFGGMIFVLVYCIAGISGGHINPAVTFGLLLARKLSLVRAALYVVAQCLGAMCGAGLVKAFHGAHWYL

Parental  RYGGGANSLASGYSRGTGLGAEIIGTFVLVYTVFSATDPKRNARDSHVPVLAPLPIGFAVFMVHLATIPV
          RYGGGAN.LA.GYS.G.GLGAEI.GTFVLVYTVFSATDPKR..RDSHVPVLAPLPIGFAVFMVHLATIPV
Retrocopy RYGGGANELAAGYSKGAGLGAEIVGTFVLVYTVFSATDPKRKVRDSHVPVLAPLPIGFAVFMVHLATIPV

Parental  TGTGINPARSLGAAVIYNKDKPWDDHWIFWVGPLVGAAIAAFYHQYILRAGAIKALGSFRSN
          TGTGINPARSLG.AV.YN..K.W.DHWIFWVGPL.GAA.A..YHQ..LRAGA.KA..SFR.N
Retrocopy TGTGINPARSLGPAVVYNQRKAWEDHWIFWVGPLIGAAAAMLYHQLVLRAGAAKAFASFRNN

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_22 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	GRMZM2G014914	1 retrocopy	retro_zmay_22 ,