RetrogeneDB ID: retro_gmax_15

Retrocopy location

• Organism: Soybean (Glycine max)
• Coordinates: 1:41367786..41368157(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GLYMA16G06491
• Aliases: None
• Description: None

Sequence

>retro_gmax_15
TCATTACTCTTTATTGAGCTTGACCTTGGCTTCTCCCTTGTGTGAATAAAAGATGAAGAATGGGTATATGCTATAGGAAG
TAGCACAGGGCCAAAGAATTGATGGTGTATCAACCCAAAATGGAAAACATGTGGGAATGGAAAACTACAATCTCCCATTG
ATCTGCTTGACCAAAGAGTTCAATAGCTTCCTCAATTAAGTAAACTTGAGAAAGTTTACGAATTAGCTCATGCTTCCTCG
ACGTTGTGCTTAATGTTTTGACAGCTGGATGGAAAGAAGATGCAGGCCATCTTAACATAAATGAAACTTACTACAATCTC
ACTCAATGTCATTGACATACACCTTTAGAGCACACGTTGAATGGAACAAAG

Alignment

ORF - retro_gmax_15 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.6 %
• Parental protein coverage: 87.94 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SVLLLLLILYFSSVLASEAEFSYAKGTSNGPENWWHLNPKWKVCQYGKLQSPIDLRDRWVKVLPQLGELQ
          S.L...L.L.FS.V.....E..YA.G.S.GP.N.W..NPKWK.C..GKLQSPIDL.D..V..LPQL..L.
Retrocopy SLLFIELDLGFSLV*IKDEEWVYAIGSSTGPKN*WCINPKWKTCGNGKLQSPIDLLDQRVQ*LPQLSKLE

Parental  KVYKPAPA-VLKNMGHYITVRWNGDAGQLRINGNYYKLIQFHWHTPSEHTLNGLK
          KVY..A.A..L.......T..W..DAG.L.IN..YY.L.Q.H.HTP.EHTLNG.K
Retrocopy KVYELAHA<FLDVVLNVLTAGWKEDAGHLNINETYYNLTQCH*HTPLEHTLNGTK

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_15 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Glycine max	GLYMA16G06491	2 retrocopies	retro_gmax_15 , retro_gmax_40,