RetrogeneDB ID: retro_gmax_40

Retrocopy location

• Organism: Soybean (Glycine max)
• Coordinates: 20:25851691..25852074(-)
• 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_40
CATTATGCCTCATTACTCTTTATTGAGCTTCATGTTGGCTTCTCCCTTGTGTGAACAGAAGATTTCAAAATGGGTATATG
CTACAGGAAGTAGCACAGGGCCAGAGAATTGGTGGTGTATCAACCCATAATGGACAACATGTGGGGATGGAAAAACTACA
ATTTCCCATTGATTTGCTTGACCAAAGGGTTCAATAGCTTCCTCAATTGGGTAAACTTAAGATAGTTTACGAATCAGCTC
CTGCTTCCTCAACTTTGTGCTTAATGTTTTGACAGTTGGAATGGAAAGGAGATGCAGGCCAGCTTAACATAAATGAAACT
TACTACAATCTAACTCAATGTCATTGGCATACACCTTCAGAGCACACGTTGAATGGAACAAAG

Alignment

ORF - retro_gmax_40 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.94 %
• Parental protein coverage: 90.07 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NFFSVLLLLLILYFSSVLASE-AEFSYAKGTSNGPENWWHLNPKWKVCQYGK-LQSPIDLRDRWVKVLPQ
          ...S.L...L...FS.V.........YA.G.S.GPENWW..NP.W..C..GK.LQ.PIDL.D..V..LPQ
Retrocopy HYASLLFIELHVGFSLV*TED>SKWVYATGSSTGPENWWCINP*WTTCGDGK>LQFPIDLLDQRVQ*LPQ

Parental  LGELQKVYKPAPAVLKNMGHYITVRWNGDAGQLRINGNYYKLIQFHWHTPSEHTLNGLK
          LG.L..VY..APA............W.GDAGQL.IN..YY.L.Q.HWHTPSEHTLNG.K
Retrocopy LGKLKIVYESAPASSTLCLMF*QLEWKGDAGQLNINETYYNLTQCHWHTPSEHTLNGTK

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_40 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 ,