RetrogeneDB ID: retro_gmax_29

Retrocopy location

• Organism: Soybean (Glycine max)
• Coordinates: 15:37358151..37358564(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GLYMA13G18005
• Aliases: None
• Description: None

Sequence

>retro_gmax_29
ATACAAACAAAAACTTATTTCTATTCTTTACACGTTTCCTTGCAGAACATTATTGAGGTCCCTTTGTCTTACCATAGACA
GTGGAGGCCATATTACCCAACTTATGTTTTATTTTACCACAATGGAAGCACACATTTTGTTAGGGTACGAAAATATGGCA
ACCACTATTTTTTTGCTGATGGTCTCAAAGAGTTTAGGAGAACCCACAACATTAACGACGGTGTCATTATCCGGTTTTTT
GCTCCCGACAAAAATACATTTTTGAGGTTGATGTCATGGGGCCTATCCATGGGCAACCAACGGGAAGGTCAGTGGTTACA
ACAAGAAGGCACATCTTTACAACTGATGCCACACCAGAGATGGTGCAACACAACTTGCCTTTGGTAGGATTTTCCAACCC
ACTCAATTATGTT

Alignment

ORF - retro_gmax_29 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.15 %
• Parental protein coverage: 88.46 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MMARTRFTAAFRVQKNIIEVPLSYHSQWRPYYPTYVLFDYNGTKHFIRVHKCGTRCFFADGLKEFRRTHD
          ....T.F........NIIEVPLSYH.QWRPYYPTYVLF..NG..HF.RV.K.G.....ADGLKEFRRTH.
Retrocopy IQTKTYFYSLHVSLQNIIEVPLSYHRQWRPYYPTYVLFYHNGSTHFVRVRKYGNHXXXADGLKEFRRTHN

Parental  INDSVIIRFFAASKDTSL-EVDIMGPILRQTCQRSVVTTRRHIFTADVTQDMIEHTNPLVLPATTLNFL
          IND.VIIRFFA..K.T.L.EVD.MGPI..Q...RSVVTTRRHIFT.D.T..M..H..PLV.....LN..
Retrocopy INDGVIIRFFAPDKNTFL<EVDVMGPIHGQPTGRSVVTTRRHIFTTDATPEMVQHNLPLVGFSNPLNYV

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_29 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Glycine max	GLYMA13G18005	1 retrocopy	retro_gmax_29 ,