RetrogeneDB ID: retro_gmax_9

Retrocopy location

• Organism: Soybean (Glycine max)
• Coordinates: 4:7452396..7453380(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: GLYMA04G09280
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GLYMA17G34990
• Aliases: None
• Description: None

Sequence

>retro_gmax_9
ATGGCTTCTTCTTCTTCTTCTTCCTCCTCTCTTCCTAATCTTCATCCATCACATCGTGCTGAAGTACGCATCGTGACGAA
GGCGTCTGAACTCCCCGCTGCATTTCTTGCACCCTCCCCGTCGTCGAAGCTGGTGATCGGTTTCGACAACGAGGGCGTGA
AACTGGGCCGCGATGGCACTCTCTGCGTGATGCAGCTGGCGTTCGACGACGCCATATACATCGTGGACACCATCGAAGGC
GAAGAGAATCTCGTAATGAAAGCTTGCAAGGCGGCGCTGGAGTCCGAACACGTGACAAAGGTGATCCACGACTGCAAACG
CGACAGCGAGGCCTTGTACTTCCAGTTCGGCATCAGGCTAAACAACGTGGTGGACACGCAGATCGCGTACTCGCTCATAG
AGTCGCAAGAGCAAGGAAAGAAGGTAAACGACTACATCTCCTTCGTCGACCTTCTCGCAGATCCGCGTTACTGCGGCGTA
GCGTATCCGGAGAAGGAAGAGGTTCGCTTAATCCTGAAAAGGAACACCGAGTTTTGGAGAGAGAGACCGTTGACCGAGTA
TAAGTTGAATGCTGCTGCTGCTGATGTTCGTTATCTTATACACATTTACCACAAGATGATGGAGAAGCTGAGTGAGAAAT
CTTTATGGTATCTTGCGGTTCGTGGTGGATTGTATTGCCGGTGTTTCTGCGGGAACGCTGAGAATTGGCCACCTCTGGCT
CCGGAAGCGCTGAAAGATGAGAACGGAAAGGGACCGGAGGAAGAAAGGATTTGGGTGTTGGATATTCCGGCGGGAGGGTG
GGCGAGAGAAGTTATTGGGGACGGAGGGATAACAATTAGGAATCTTAGGAAGGCCAGCGATGCAGAAATCCACATTGTTG
AAAGGCCACCGGATGACAAGGCCTTCATCATCGGAACAGAGAAGGAGGCCAAGAAAGCCATGGCTATGGTACGTGGTGTC
TGGGAACATTCCGAAATCAGTTAG

Alignment

ORF - retro_gmax_9 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.39 %
• Parental protein coverage: 80.23 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RVPIHIVTAASQLPVEFLEPSPQSKLVIGFDCEGVDLCRKGTLCVMQLAFPDAVYLVDAIEGGEELII-A
          R....IVT.AS.LP..FL.PSP.SKLVIGFD.EGV.L.R.GTLCVMQLAF.DA.Y.VD.IEG.E.L...A
Retrocopy RAEVRIVTKASELPAAFLAPSPSSKLVIGFDNEGVKLGRDGTLCVMQLAFDDAIYIVDTIEGEENLVMKA

Parental  CKPALESNYITKVIHDCKRDSEALYFQFGIKLNNVVDTQIAYSLIEEQEGRKRLRDDYISFVGLLADPRY
          CK.ALES...TKVIHDCKRDSEALYFQFGI.LNNVVDTQIAYSLIE.QE..K....DYISFV.LLADPRY
Retrocopy CKAALESEHVTKVIHDCKRDSEALYFQFGIRLNNVVDTQIAYSLIESQEQGKKV-NDYISFVDLLADPRY

Parental  CGKSYDEKEEVRVLLRQDPKFWRHRPLSEQMVRAAADDVRFLLYIYHQMMEKLNERSLWYLAVRGVLYCR
          CG..Y.EKEEVR..L.....FWR.RPL.E....AAA.DVR.L..IYH.MMEKL.E.SLWYLAVRG.LYCR
Retrocopy CGVAYPEKEEVRLILKRNTEFWRERPLTEYKLNAAAADVRYLIHIYHKMMEKLSEKSLWYLAVRGGLYCR

Parental  CFCLNSNNFADWPSLPPIPVDNLNADGSDPKEEILSVLDIPQGKMGL-VIGKRGATILSIKQSCNAEI
          CFC.N..N...WP.L.P......N..G..P.EE...VLDIP.G.....VIG..G.TI........AEI
Retrocopy CFCGNAEN---WPPLAPEALKDEN--GKGPEEERIWVLDIPAGGWAREVIGDGGITIRNLRKASDAEI

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_9 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	GLYMA17G34990	1 retrocopy	retro_gmax_9 ,