RetrogeneDB ID: retro_gmax_36

Retrocopy location

• Organism: Soybean (Glycine max)
• Coordinates: 17:38043251..38043649(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GLYMA09G04840
• Aliases: None
• Description: None

Sequence

>retro_gmax_36
ACATTAGCACATTGCTTAATTGCACTCTGGACTTACTATGGAATCATAAAGGACGGAGAGTACCTCGTGATCACTGTTAA
TGGCTTTGGCTTGTGGTGAAGACAATCTACATTATTCTATTTCTCATATAGGCAACAAAAGGGATAAGAGGTAGGACTGT
CATTTTCGCTTTCATTTTGGATGTTGTAATCTTGGCAGCAACTAGTTACTACTCAATTAGCATTGCAAAGAGAGAGTTGT
AATGGTGTTGTTGGTGTTATAGGAGTAGGCTTGAACATTGTTAGGTATTCCTCACCTCTTTCTGTCATGAAAACGTGACT
GCAGTATATGCTATGCCATTCTTGCTTCTTTTTTTTTTCCTTTTCTTATTTAAAAAAAAATCTACAAGAATTTTGTTT

Alignment

ORF - retro_gmax_36 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.2 %
• Parental protein coverage: 54.1 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TLLNC--SLWTYYGIIKAGEYLVATVNGFGI-LMETIYIILFLIYAPKGIRGRTAILALILDVVILTAI-
          TL..C...LWTYYGIIK.GEYLV.TVNGFG.....TIYIILFLI.A.KGIRGRT.I.A.ILD.V...A..
Retrocopy TLAHCLIALWTYYGIIKDGEYLVITVNGFGL<VVKTIYIILFLI*ATKGIRGRTVIFAFILD-VVILAA>

Parental  IIITQLALEGETRSGAVGVMGAGLNIVMYSSPLSVMKT-VVTTKSVEYMPFLLSFFFFFNGAVWLLY
          ...TQLAL..E...G.VGV.G.GLNIV.YSSPLSVMKT.V...............F.F.......L.
Retrocopy LVTTQLALQRESCNGVVGVIGVGLNIVRYSSPLSVMKT<VTAVYAMPFLLXXXXLFLFXXXSTRILF

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_36 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	GLYMA09G04840	1 retrocopy	retro_gmax_36 ,