RetrogeneDB ID: retro_gmax_10

Retrocopy location

• Organism: Soybean (Glycine max)
• Coordinates: 16:32478852..32479359(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: GLYMA16G28550
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GLYMA05G27940
• Aliases: None
• Description: None

Sequence

>retro_gmax_10
ATGGTGAAGTACTCAAGGGAGCCTGACAATCCAACTAAGTCTTGCAAGGCTAGAGGCGCCGACCTTAGGGTTCATTTTAA
GAACACAAGGGAAACTGCCTTTGCAATCAGGAAGTTGCCCTTGGTCAAGGCTAAAAGGTACTTGGAAGATGTTCTTGCCC
ACAAGCAGGCAATTCCATTCAGACGTTTTTGTCGAGGTGTTGGAAGGACAGCCCATGCTAAGAATAGACACTCTAATGGC
CAAGGACGGTGGCCTGTCAAGTCAGCAAAATTCATTCTTGATTTGCTCAAAAATGCTGAGAGCAATGCTGAAGTGAAAGG
TTTGGATGTTGATGCACTGTACATTTCGCATATCCAAGTCAATCAAGCACAGAAGCAAAGACGCCGAACATACCGAGCCC
ATGGAAGAATCAATCCTTATATGTCATCTCCGTGCCACATAGAGTTAATATTATCTGAAAAAGAAGAAGATTTTATTTCA
TTTGCCACACTAAATACAAGAGTATGA

Alignment

ORF - retro_gmax_10 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.36 %
• Parental protein coverage: 86.19 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVKYSREPDNPTKSCKARGADLRVHFKNTRETAFAIRKLPLVKAKRYLEDVLAHKQAIPFRRFCRGVGRT
          MVKYSREPDNPTKSCKARGADLRVHFKNTRETAFAIRKLPLVKAKRYLEDVLAHKQAIPFRRFCRGVGRT
Retrocopy MVKYSREPDNPTKSCKARGADLRVHFKNTRETAFAIRKLPLVKAKRYLEDVLAHKQAIPFRRFCRGVGRT

Parental  AQAKNRHSNGQGRWPVKSAKFILDLLKNAESNAEVKGLDVDALYISHIQVNQAQKQRRRTYRAHGRINPY
          A.AKNRHSNGQGRWPVKSAKFILDLLKNAESNAEVKGLDVDALYISHIQVNQAQKQRRRTYRAHGRINPY
Retrocopy AHAKNRHSNGQGRWPVKSAKFILDLLKNAESNAEVKGLDVDALYISHIQVNQAQKQRRRTYRAHGRINPY

Parental  MSSPCHIELILSEKEE
          MSSPCHIELILSEKEE
Retrocopy MSSPCHIELILSEKEE

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_10 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Glycine max	GLYMA05G27940	1 retrocopy	retro_gmax_10 ,
Triticum aestivum	Traes_7BS_586D1E6FD	1 retrocopy	retro_taes_91,
Vitis vinifera	VIT_01s0010g03370	2 retrocopies	retro_vvin_145, retro_vvin_18,