RetrogeneDB ID: retro_gmax_6

Retrocopy location

• Organism: Soybean (Glycine max)
• Coordinates: 7:3301771..3304225(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: GLYMA07G04500
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GLYMA16G01090
• Aliases: None
• Description: None

Sequence

>retro_gmax_6
ATGAATAGTATCTCTTGTTCAGCTTCCAGAATTCTTGTTGTATCTGGATCAACCAATGAACACGAAACTAGGTCATTATT
AACCATCCCTCCAATAGTGAAGGAACCCAACACTAATATCATTATTATGGCTTCTCCATTCTCACTCTTGTTCTTATTCC
TGTCCTTGTGTTTCTCTGCTTCCTCATCCTCATCGGACGACGCTCCACGAACCTACATCATCCACGTGGCGCAATCCCAG
AAGCCCAGTCTCTTCACCTCACACAAAACCTGGTACTCCTCTATCCTCCGCTCCCTCCCTCCCTCCTCACCCCCCGCCAC
CCCCCTCTACACCTACTCCTCCGCCGCCGCCGGCTTCTCCGTCCGCCTCAGCCCCTCCCAAGCCTCCCTCCTCCGCCGCC
ACCCCTCCGTCCTCGCCCTCCTCCCCGACCAAATCCGCCATCCCCACACCACCCACACCCCGCGCTTCCTCGGCCTCGCC
GACTCCTTTGGCCTCTGGCCCAACTCCGACTACGCCGACGACGTAATAGTCGGCGTCCTCGACACCGGAATCTGGCCGGA
GCTCAAGAGCTTCTCCGACGAAAACCTCTCCCCAATCTCCTCCTCCTCCTCATGGAAAGGCTCCTGCCAATCCTCACCCG
ACTTCCCTTCCTCCCTCTGCAACAACAAAATCATCGGCGCCAAAGCCTTCTACAAAGGCTACGAATCCTACCTCGAAAGA
CCAATCGACGAATCTCAGGAATCGAAATCGCCACGCGACACCGAAGGCCACGGCACGCACACCGCCTCCACCGCCGCAGG
CGCCGTCGTCTCCAACGCAAGCCTCTTCCACTATGCGCAGGGCGAAGCCAGAGGAATGGCTACGAAAGCAAGAATCGCAG
CCTATAAGATCTGCTGGAAGCTAGGTTGCTTCGACTCTGACATCCTCGCCGCCATGGACGAGGCTGTCTCCGACGGCGTC
CACGTCATCTCGCTCTCCGTCGGCGCGTCCGGCTACGCGCCCCAGTACTACCGTGACTCAATCGCCGTGGGAGCGTTCGG
CGCTGCCAGACACAACGTTCTCGTCTCGTGCTCCGCCGGAAACTCAGGACCTGGTCCTTCCACCGCTGTTAACATAGCAC
CGTGGATTTTAACCGTCGGAGCTTCCACCGTCGACAGAGAGTTTCCGGCAGACGTGATCCTCGGAGACGGAAGAGTCTTC
GGTGGGGTGTCTTTGTATTACGGCGAAAAATTACCTGATTTTAAGCTTCCATTGGTTTACGCTAAGGATTGTGGAAGCAG
GTACTGTTACATGGGATCTCTAGAATCTTCCAAAGTGCAAGGAAAAATTGTTGTTTGTGACAGAGGAGGGAATGCTAGAG
TTGAAAAGGGAAGTGCAGTGAAACTTGCTGGTGGGTTGGGAATGATTATGGCCAACACTGAAGCCAACGGTGAAGAGCTT
CTTGCAGATGCGCATCTTTTAGCAGCTACTATGGTGGGTCAAGCCGCTGGGGATAAGATTAAGGAGTATATAAAGCTGAG
TCAGTACCCAACAGCAACGATTGAGTTCAGAGGAACTGTGATTGGTGGTTCAGAACCTTCTGCTCCTCAAGTTGCTTCCT
TTTCTAGCCGTGGACCCAACCATCTTACATCGCAGATTCTGAAGCCTGATGTTATTGCTCCGGGGGTTAATATCTTAGCA
GGGTGGACTGGGCGTGTGGGGCCCACGGATTTGGACATTGATCCTAGGAGGGTCGAGTTTAACATAATTTCGGGTACTTC
TATGTCGTGTCCTCATGCGAGCGGCATTGCTGCGTTGCTTAGGAAGGCTTATCCTGAGTGGTCACCTGCGGCGATTAAGT
CTGCATTGATGACCACGGCTTATAATGTGGATAATTCTGGGGGGAGCATTAAGGATCTTGGAAGTGGGAAGGAGTCAAAT
CCGTTTATTCATGGTGCTGGACATGTTGATCCCAATAGGGCTATTAACCCTGGCTTGGTTTATGATTTGGACACTGGTGA
CTATGTGGCGTTCTTGTGTTCTGTTGGGTATGATGCTAATCAGATTGCGGTTTTCACTAGAGAGCCTGCTGCTGAAAGTG
TTTGTGAAGGGAAAGTGGGGAGGACTGGGAAGTTGGCGAGTCCCGGTGACTTGAATTACCCTTCTTTCGCGGTGAAGTTG
GGTGGGGAAGGTGATTTGGTCAAGAATAAACGGGTTGTTACTAATGTGGGAAGCGAGGTTGATGCTGTTTACACTGTTAA
GGTCAATCCTCCACCTGGTGTTGGTGTTGGTGTGTCTCCCAGCACGATTGTGTTCAGTGCCGAAAACAAGACACAGGCGT
TTGAGGTCACGTTTAGTAGAGTTAAGTTGGATGGCTCTGAGAGTTTTGGCTCCATTGAGTGGACTGATGGAAGTCATGTT
GTGAGGAGTCCAATTGCTGTTACTTGGAGCGGTGCATACTCATCGTCCGTTTGA

Alignment

ORF - retro_gmax_6 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.67 %
• Parental protein coverage: 99.35 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SSPFSLFFLLLSFFVFA---SSDDAPQTYIIHVAQSQKPSLFTSHTTWYSSILRSLPPSPHPATLLYTYS
          .SPFSL.FL.LS....A...SSDDAP.TYIIHVAQSQKPSLFTSH.TWYSSILRSLPPS..PAT.LYTYS
Retrocopy ASPFSLLFLFLSLCFSASSSSSDDAPRTYIIHVAQSQKPSLFTSHKTWYSSILRSLPPSSPPATPLYTYS

Parental  SAASGFSVRLTPSQASHLRRHPSVLALHSDQIRHPHTTHTPRFLGLADSFGLWPNSDYADDVIVGVLDTG
          SAA.GFSVRL.PSQAS.LRRHPSVLAL..DQIRHPHTTHTPRFLGLADSFGLWPNSDYADDVIVGVLDTG
Retrocopy SAAAGFSVRLSPSQASLLRRHPSVLALLPDQIRHPHTTHTPRFLGLADSFGLWPNSDYADDVIVGVLDTG

Parental  IWPELKSFSDHNLSPIPSS--WKGSCQPSPDFPSSLCNNKIIGAKAFYKGYESYLERPIDESQESKSPRD
          IWPELKSFSD.NLSPI.SS..WKGSCQ.SPDFPSSLCNNKIIGAKAFYKGYESYLERPIDESQESKSPRD
Retrocopy IWPELKSFSDENLSPISSSSSWKGSCQSSPDFPSSLCNNKIIGAKAFYKGYESYLERPIDESQESKSPRD

Parental  TEGHGTHTASTAAGAVVSNASLFHYARGEARGMATKARIAAYKICWKLGCFDSDILAAMDEAVSDGVHVI
          TEGHGTHTASTAAGAVVSNASLFHYA.GEARGMATKARIAAYKICWKLGCFDSDILAAMDEAVSDGVHVI
Retrocopy TEGHGTHTASTAAGAVVSNASLFHYAQGEARGMATKARIAAYKICWKLGCFDSDILAAMDEAVSDGVHVI

Parental  SLSVGSSGYAPQYYRDSIAVGAFGAAKHNVLVSCSAGNSGPGPSTAVNIAPWILTVGASTVDREFPADVI
          SLSVG.SGYAPQYYRDSIAVGAFGAA.HNVLVSCSAGNSGPGPSTAVNIAPWILTVGASTVDREFPADVI
Retrocopy SLSVGASGYAPQYYRDSIAVGAFGAARHNVLVSCSAGNSGPGPSTAVNIAPWILTVGASTVDREFPADVI

Parental  LGDGRVFGGVSLYYGESLPDFKLPLVYAKDCGSRYCYIGSLESSKVQGKIVVCDRGGNARVEKGSAVKLT
          LGDGRVFGGVSLYYGE.LPDFKLPLVYAKDCGSRYCY.GSLESSKVQGKIVVCDRGGNARVEKGSAVKL.
Retrocopy LGDGRVFGGVSLYYGEKLPDFKLPLVYAKDCGSRYCYMGSLESSKVQGKIVVCDRGGNARVEKGSAVKLA

Parental  GGLGMIMANTEANGEELLADAHLLAATMVGQTAGDKIKEYIKLSQYPTATIEFRGTVIGGS-PSAPQVAS
          GGLGMIMANTEANGEELLADAHLLAATMVGQ.AGDKIKEYIKLSQYPTATIEFRGTVIGGS.PSAPQVAS
Retrocopy GGLGMIMANTEANGEELLADAHLLAATMVGQAAGDKIKEYIKLSQYPTATIEFRGTVIGGSEPSAPQVAS

Parental  FSSRGPNHLTSQILKPDVIAPGVNILAGWTGRVGPTDLDIDPRRVEFNIISGTSMSCPHASGIAALLRKA
          FSSRGPNHLTSQILKPDVIAPGVNILAGWTGRVGPTDLDIDPRRVEFNIISGTSMSCPHASGIAALLRKA
Retrocopy FSSRGPNHLTSQILKPDVIAPGVNILAGWTGRVGPTDLDIDPRRVEFNIISGTSMSCPHASGIAALLRKA

Parental  YPEWSPAAIKSALMTTAYNVDNSGGNIKDLGSGKESNPFIHGAGHVDPNRALNPGLVYDLDSNDYLAFLC
          YPEWSPAAIKSALMTTAYNVDNSGG.IKDLGSGKESNPFIHGAGHVDPNRA.NPGLVYDLD..DY.AFLC
Retrocopy YPEWSPAAIKSALMTTAYNVDNSGGSIKDLGSGKESNPFIHGAGHVDPNRAINPGLVYDLDTGDYVAFLC

Parental  SVGYDANQIAVFTREPAVESVCEGKVGRTGKLASPGDLNYPSFAVKLGGEGDLVKYRRVVTNVGSEVDVV
          SVGYDANQIAVFTREPA.ESVCEGKVGRTGKLASPGDLNYPSFAVKLGGEGDLVK..RVVTNVGSEVD.V
Retrocopy SVGYDANQIAVFTREPAAESVCEGKVGRTGKLASPGDLNYPSFAVKLGGEGDLVKNKRVVTNVGSEVDAV

Parental  YTVKVNAPPGVGVGVSPSTLVFSGENKTQAFEVTFSRAKLDGSESFGSIEWTDGSHVVRSPIAVTLSAAY
          YTVKVN.PPGVGVGVSPST.VFS.ENKTQAFEVTFSR.KLDGSESFGSIEWTDGSHVVRSPIAVT.S.AY
Retrocopy YTVKVNPPPGVGVGVSPSTIVFSAENKTQAFEVTFSRVKLDGSESFGSIEWTDGSHVVRSPIAVTWSGAY

Parental  SSSI
          SSS.
Retrocopy SSSV

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_6 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	GLYMA16G01090	1 retrocopy	retro_gmax_6 ,