RetrogeneDB ID: retro_gmax_45

Retrocopy location

• Organism: Soybean (Glycine max)
• Coordinates: 6:45193741..45194281(-)
• Located in intron of: GLYMA06G41930

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GLYMA13G19120
• Aliases: None
• Description: None

Sequence

>retro_gmax_45
GTCGAACAGAGCAGAATCAAGGAGAAGAGAAGAATGGCATTGGGATTGGGTAACGCTGTTGCTCTTCCTATCTCAAACTT
GAAACCTTCTCTAAAGTTATCTTCTTCTTCTTTCACCAAACTCTTGTTCTCTTACTCTCGCCCCTTTTCCTGCATCAATG
TTTCTCCTCCAATGCCAAACCGCATTCCCACCTTGGCAGTAGTTCGAGCCTTTTCCTCTTCCTCTTTCAGGTCTTGCCTC
GAAGACACCATCAAAAAGACCGTAGCTGAGAACCCAGTTGTCATTTATTCCAAAACCTGGTGTTTCTATTCCTCTGAGAT
GAAAATCCTCTTCAAAAAACTCGGCGTCGACCCTCTTGTCTTTGAATTAGACGAATTGGGTCCTCAAGGGCCACAGTTGC
AGAAGGTTTTGGAAAGGATCACAGGGCAACACACTGTGCCAAATGTATTTATTGGTGGCAAACGCATTGGCGGCTGTACA
GATACACTGAAGCTGTACCGGAAAGGAGAACTAGAACCTTTGCTATGAGAAGTGAATGCT

Alignment

ORF - retro_gmax_45 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.11 %
• Parental protein coverage: 97.18 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MQEKKNGRSNSMALALGNAI--PLSNLKPCPKLSCCCMKKLFFTHSVPISRI---PTTPKRTPT-TVVRA
          ...........MAL.LGNA...P.SNLKP..KLS.....KL.F..S.P.S.I...P..P.R.PT..VVRA
Retrocopy VEQSRIKEKRRMALGLGNAVALPISNLKPSLKLSSSSFTKLLFSYSRPFSCINVSPPMPNRIPTLAVVRA

Parental  --TSSFGSRLEDTIKKTVAENPVVLYSKTWCSYSSEVKILFKKLGVDPLVFELDEMGPQGPQLHKVLERI
          ...SSF.S.LEDTIKKTVAENPVV.YSKTWC.YSSE.KILFKKLGVDPLVFELDE.GPQGPQL.KVLERI
Retrocopy FSSSSFRSCLEDTIKKTVAENPVVIYSKTWCFYSSEMKILFKKLGVDPLVFELDELGPQGPQLQKVLERI

Parental  TGQHTVPNVFIGGKHIGGCTDTLKLYRKGELEPLLSKANA
          TGQHTVPNVFIGGK.IGGCTDTLKLYRKGELEPLL...NA
Retrocopy TGQHTVPNVFIGGKRIGGCTDTLKLYRKGELEPLL*EVNA

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_45 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	GLYMA13G19120	1 retrocopy	retro_gmax_45 ,