RetrogeneDB ID: retro_gmax_1

Retrocopy location

• Organism: Soybean (Glycine max)
• Coordinates: 5:123345..123582(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: GLYMA05G00310
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GLYMA03G32380
• Aliases: None
• Description: None

Sequence

>retro_gmax_1
ATGGCCACCGTCAAGAAGGGAAAGCCTGATCTCCGTAAGGTGTTGCCTGTTGTCATCGTCCTTCAGCACAGGCCATGGCA
CAGAAAGGATGGCGTTTTACATGCATTTCGAAGATTATGTTGGGTCACAGTGAATCCCAAGGGTGAAATGAAAGGATCTA
CTATCACTGGTCCAATTGGGAAGGAGTGTGCTAATCTCTGGCCGAGGATTGCAAGAGTTGCCAATGCTATTGTTTAG

Alignment

ORF - retro_gmax_1 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.95 %
• Parental protein coverage: 56.43 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MATVKKGKPDLRKKVLPAVIVRQRKPWRRKDGVYMYFEDNAGVIVNPKGEMKGSAITGPIGKECADLWPR
          MATVKKGKPDLRK.VLP.VIV.Q..PW.RKDGV...F.....V.VNPKGEMKGS.ITGPIGKECA.LWPR
Retrocopy MATVKKGKPDLRK-VLPVVIVLQHRPWHRKDGVLHAFRRLCWVTVNPKGEMKGSTITGPIGKECANLWPR

Parental  IASAANAIV
          IA..ANAIV
Retrocopy IARVANAIV

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Glycine max was not studied using RNA-Seq expression data.

ChIP-Seq

Glycine max was not studied using ChIP-Seq data.

EST

Glycine max was not studied using EST data.

TSS

Glycine max was not studied using FANTOM5 data.

Lab

retro_gmax_1 was not experimentally validated.

Homology

Retrocopy orthology:

Glycine max 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,