RetrogeneDB ID: retro_zmay_19

Retrocopy location

• Organism: Maize (Zea mays)
• Coordinates: 10:149437842..149438181(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: GRMZM5G856180
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GRMZM2G010348
• Aliases: None
• Description: None

Sequence

>retro_zmay_19
ATGGCTTCCTTTGGCGAGGCTCCCGGCGGTGACGCCGGCAGCGGCGAGAAGATCTTCCGCACCAAGTGCGCGCAGTGCCA
TACCGTGGAGCGAGGTGGCGCGCACAGGCAGGGACCCAACCTGCACGGCCTCTTCGGTCGTCAGTCAGGCACCACCCTCG
GCTATGCCTACTCCACGGCCAACAAGAACATGGCCGTCGTCTGGGAGGAGGGCACCCTGTACGACTACCTCTTCAACCCC
AAGAAGTACATTCCAGGCACAAAGATGGTCTTCCCGGGGCTCAAGAAGCCTAAGGAGCGAACCGATCTCATCGCCTACCT
CAAGGAATCCACGGCTTAA

Alignment

ORF - retro_zmay_19 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.46 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASFSEAPPGNPKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTTGYSYSAGNKNKAVIWEE
          MASF.EAP.G....GEKIF.TKCAQCHTVE.G..H.QGPNL.GLFGRQSGTT.GY.YS..NKN.AV.WEE
Retrocopy MASFGEAPGGDAGSGEKIFRTKCAQCHTVERGGAHRQGPNLHGLFGRQSGTTLGYAYSTANKNMAVVWEE

Parental  NTLYDYLLNPKKYIPGTKMVFPGLKKPQERADLIAYLKEATA
          .TLYDYL.NPKKYIPGTKMVFPGLKKP.ER.DLIAYLKE.TA
Retrocopy GTLYDYLFNPKKYIPGTKMVFPGLKKPKERTDLIAYLKESTA

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_19 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Zea mays	GRMZM2G010348	1 retrocopy	retro_zmay_19 ,
Sorghum bicolor	Sb09g020710	1 retrocopy	retro_sbic_30,