RetrogeneDB ID: retro_gmax_43

Retrocopy location

• Organism: Soybean (Glycine max)
• Coordinates: 5:37187146..37187658(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GLYMA16G34750
• Aliases: None
• Description: None

Sequence

>retro_gmax_43
TTATGTGGAACTCCTGGAATTACAATGGACTAGTAAGTTGCACTTGCAAGTCCTAGTTCATACACGATTAAGAGGATTTT
GTGTCTGGAAATTCCAATTGATACATACCTCAATTTCAATTTTGTTGGAAGGCTTTTGAGACCTAAACACAATTCTCTAA
AAGGGGTATAAGCTTCTATAGGTTGTCATGTGTATATTAGAAAAAATGGTTCAATAAAAGATTCATACAAGGAAGGAAAC
TAAGAGGAAGACCAGACTATGAGCATCTCAATGAGAAAATCCACATCTTGATTGAGACACATTTACCTGATAATATTTTT
GACATAAGGCTTTGGCAAGCTCATGAAATTATAGAATAACTACTCAAAACTGTGGAAGAATTTGATGACTATATTAAGAA
ACAACATTTGCATGAACTAACAATGCTAGATTCAAATTTTAGATAAAAGAGTCATCAACTAAGTGGAAGTGTATCTCCAT
TTAATTCCAATGGAATGAGACAAACTAAAACT

Alignment

ORF - retro_gmax_43 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.35 %
• Parental protein coverage: 60.85 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LRGTPGMTMDWQVAPASPSSYTVKRILRLEIPVDTYPNFNFVGRLLGPRGNSLKRVEASTGCRVYIRGKG
          L.GTPG.TMD..VA.ASPSSYT.KRIL.LEIP.DTY.NFNFVGRLL.P..NSLK.V.AS.GC.VYIR..G
Retrocopy LCGTPGITMD**VALASPSSYTIKRILCLEIPIDTYLNFNFVGRLLRPKHNSLKGV*ASIGCHVYIRKNG

Parental  SIKDPDKE-EKLRGRPGYEHLNEQLHILIEADLPANVVDLRLRQAQEIIEELLKPVEESEDYIKRQQLRE
          SIKD..KE..KLRGRP.YEHLNE..HILIE..LP.N..D.RL.QA.EIIE.LLK.VEE..DYIK.Q.L.E
Retrocopy SIKDSYKE<RKLRGRPDYEHLNEKIHILIETHLPDNIFDIRLWQAHEIIE*LLKTVEEFDDYIKKQHLHE

Parental  LAMLNSNFREESPGPSGSVSPFNSSGMKRAKT
          L.ML.SNFR..S...SGSVSPFNS.GM...KT
Retrocopy LTMLDSNFR*KSHQLSGSVSPFNSNGMRQTKT

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_43 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	GLYMA16G34750	1 retrocopy	retro_gmax_43 ,