RetrogeneDB ID: retro_gmax_25

Retrocopy location

• Organism: Soybean (Glycine max)
• Coordinates: 14:30471016..30471649(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GLYMA07G27031
• Aliases: None
• Description: None

Sequence

>retro_gmax_25
GTTTTGTTAATTCAAATCACACCCGTGGTTTCACATTATTCTTAATCGGGAAACTGAATTAAGGGTATTTTTGCATAGGG
GAATAAGATCATGCCTGGCATTCTCTCAAGGCTGAATGCAACCATTTACTGTCGCATTCGGGAAGCAATAACAAGGCAAC
AAGGAGTGCCGACATCCTTGTACAGAAGTTCAGCTTTGCCTCTTTGTTCGCTCACTTCAAGTCACACACTTCACACAAAA
TCAATGATTACTGCCTCACATTCCAATGCTATGCTGGGAGATGTTTATGCTTATGGCTTAATCTCAGGTCGTGGTAGTGT
GCGAGACTTCACAAAGCCTGCTGTAGGTTGCTTGAGGGGTAGTGTGAATCTAAGGAGACTACAACCATTGTATGGTCCTT
TGAGTTTTGGGTGTTCTACTTTTGATGCTAATAGGAGGATCCGGGATTCGAGTTTGCTGCATGGATCATGGCTCAAGAAT
TTCTCAGCCTCTTCTTCTGCTTGCTACTCAGCCGGGGCTGCACATGCTGTCTCATTTGATGGAAGCCCTCCTGATGAACA
GCTTGCAAATTCCTCTTTTTCGCCTGACCCGTATGTAATTGTTGTTCTTAATATTTTGAATTCTATTTCTCCA

Alignment

ORF - retro_gmax_25 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.05 %
• Parental protein coverage: 85.08 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LLFQQETPPSTDYECGSLLLKQGLVGGNKIMPGILSRLNATIYCRIREAITRQQGVPTSLYRSSALPLCS
          .L..Q.TP....Y.......K.....GNKIMPGILSRLNATIYCRIREAITRQQGVPTSLYRSSALPLCS
Retrocopy VLLIQITPVVSHYS*SGN*IKGIFA*GNKIMPGILSRLNATIYCRIREAITRQQGVPTSLYRSSALPLCS

Parental  LTSSHTLHTKSMITASHSNAMLGDVYAYGLISGRGSVRDFTKPAVGCLRGSVNLRRLQPLYGPLSFGCST
          LTSSHTLHTKSMITASHSNAMLGDVYAYGLISGRGSVRDFTKPAVGCLRGSVNLRRLQPLYGPLSFGCST
Retrocopy LTSSHTLHTKSMITASHSNAMLGDVYAYGLISGRGSVRDFTKPAVGCLRGSVNLRRLQPLYGPLSFGCST

Parental  FDANRRIRDSSLLHGSWLKNFSASSSACYSAGAAHAVSFDGSPPDEQLANSFFSPDPYVIVVLNILNSIS
          FDANRRIRDSSLLHGSWLKNFSASSSACYSAGAAHAVSFDGSPPDEQLANS.FSPDPYVIVVLNILNSIS
Retrocopy FDANRRIRDSSLLHGSWLKNFSASSSACYSAGAAHAVSFDGSPPDEQLANSSFSPDPYVIVVLNILNSIS

Parental  P
          P
Retrocopy P

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_25 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Glycine max	GLYMA07G27031	3 retrocopies	retro_gmax_25 , retro_gmax_34, retro_gmax_48,