RetrogeneDB ID: retro_gmax_32

Retrocopy location

• Organism: Soybean (Glycine max)
• Coordinates: 15:46237521..46237832(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GLYMA18G43336
• Aliases: None
• Description: None

Sequence

>retro_gmax_32
ATTTTCGGTGAAGTTAGTAAGGTATATGCTGTCAGGTGGAACAATGTACTTGACGATGTATGACATTTGGTTGACAAAGA
TGGAAATTATCATAAGGTTGTCTACAACAAAGATTTGGACCAACCAGCCATTGTAGCAGGGTGAACAGCACTACGAGATT
TTTACCAGCTGACCGGAGATCATCTAGTATCCTTAACTCATTATGGTAAGAGTGCATTTTTTCTTACCATATTCAAGACC
AGTTGCCTGCCTAGATCATTCCTAAGATGACACTCTTTATACCATCAAGTGCCAAATTTTGTCACCTTCAT

Alignment

ORF - retro_gmax_32 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.05 %
• Parental protein coverage: 63.91 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IFGEVGKVYAVKWKDVLDSIWHLVDKDENYHNIVYNQDLNQPVIVAGWITLRNFYQLTGNHLVSLHHYVL
          IFGEV.KVYAV.W..VLD...HLVDKD.NYH..VYN.DL.QP.IVAG...LR.FYQLTG.HLVSL.HY..
Retrocopy IFGEVSKVYAVRWNNVLDDV*HLVDKDGNYHKVVYNKDLDQPAIVAG*TALRDFYQLTGDHLVSLTHY--

Parental  GSVTFKVYLTEQKVSCSSLD-VPSVMHYFLKDKGWTHLH
          G...F...LT..K.SC......P.............HLH
Retrocopy GKSAF--FLTIFKTSCLPRS<IPKMTLFIPSSAKFCHLH

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_32 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	GLYMA18G43336	2 retrocopies	retro_gmax_24, retro_gmax_32 ,