RetrogeneDB ID: retro_gmax_11

Retrocopy location

• Organism: Soybean (Glycine max)
• Coordinates: 9:43478086..43480135(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: GLYMA09G37956
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: GLYMA18G48431
• Aliases: None
• Description: None

Sequence

>retro_gmax_11
ATGGAAAACTCTGTTTCATCTCTCTCACTATGTTTCCCTCCAAACCCCAAAACCCACATTTTCCAAGCTTTCAGCTTTAG
ACCCTCCCCACGATCCCCACCACCACCCTCCAAAACCCACCACACAAAACCTCCCAGATTCACCACCCCCAGAAAGCACA
GAACCAAAAAGCCAAAACCCTTCACCGAAAAAGACGCGTTTCCGAGCTCCCTACCCCTCCACAACAAAAACCCAATCTTC
ATCTTCAAAGACATCAAACGCTTCGCTCGCCAGAACAAGCTCAAGGAGGCTCTCACCATCTTGGACTACGTTGACCAGCG
CGGCATCCCCGTCGACGCCACCACTTTCTCTTCTGTCGTCGCCGCGTGCATTCGTGCCAAGTCACTGCCACAAGGAAGGG
AAGTTCACACCCACATCAGAATCAATGGACTCGAAAACAACTCTTTCTTGCGGACAAAGCTTGTTCACATGTACACCGCA
TGTGGGTCGTTGGAAGATGCGCAGAAGCTGTTTGATGGATTGCCCTGCGAGAGCGTGTACCCGTGGAACGCTTTGCTCAG
AGGGACTGTGGTTTCTGGGAAGAGACAGTACATTGATGTGCTCAAGACTTATACTGAGATGAGGGCATTGGGGGTTGAGT
TGAATGTGTATAGTTTCTCTAATGTGATTAAGAGTTTCGCTGGCGCGAGAGCATTTTCGCAAGGATTGAAGACTCATGGA
CTTTTGATTAAAAATGGATTGGTGGATAACTACATTCTTAGGACCAGTTTGATTGATATGTACTTCAAGTGTGGGAAGGT
TAGGCTCGCGTGCCGGGTGTTTGAGGAAATTCCCGAGAGGGATGTTGTTGTGTGGGGGGCGATGCTTGCTGGGTTTGCGC
ACAATAGGTTGCAGAGGGAGGTGTTGGAGTATGTGAGGTGGATGGTGGAGGAGGGAGTGAAGCCAAATTCGGTTGTGATG
ACGATTGTTATTCCTGTGATCGGGGAGGTTTGTGCGAGGAGGTTGGGTCAGGAGTTTCATGCTTATGTTGTGAAAACTAA
ATCGTACTCTAAGCTGGTGCCCGTTCAGTCTTCTTTGATTGATATGTATTGCAAGTGTGGGGATATGATTTCGGCGAGAC
GGGTTTTTTATGGTTCAAAGGAGAGGAATGTGGTTTGTTGGACTGCTCTGATGTCGGGGTATGCTGCGAATGGGAAACTA
GAGCAGGCGCTGAGGTCCACGATTTGGATGCAGCAAGAAGGGTTCAGGCCTGATGTGGTGACACTTGCCACTGTTCTTCC
GGTTTGTGCACAGTTGAGGGCTTTGGAACAAGGGAAGCAGATTCATGCGTATGCTTTGAAACATTGGTTTCTGCCTAATG
TGTCTGTAGCTTCTTCATTGATGACGATGTACTCCAAGTGTGGTGTTGTTGAGTATTCTAGAAGGTTATTTGATAATATG
GAACAAAGGAATGTGATTTCATGGACCGCCATGATTGATTCGTATATTGAAAATGGGTATCTGTGTGAAGCACTTGGTGT
GATTAGGTCAATGCAATTGTCAAAGCACAGGCCAGACTCTGTTGCTATTGGAAGGATGTTGAGTGTTTGTGGTGAACGAA
AACTTGTGAAGCTTGGGAAGGAGATTCATGGGCAGATATTGAAAAGGGACTTTACATCAGTCCATTTTGTTTCTGCAGAA
CTTATCAATATGTATGGTTTCTTTGGAGATATTAATAAGGCCAATTTGGTGTTTAATGCAGTTCCAGTTAAAGGTTCTAT
GACATGGACTGCTCTTATTAGGGCCTATGGATATAATGAATTGTATCAAGATGCAGTTAACCTTTTTGATCAAATGAGAT
ATTCTCCAAACCACTTTACCTTTGAAGCCATTCTATCTATATGTGACAAAGCTGGATTTGTTGATGATGCTTGTAGAATC
TTCAATTCAATGCCTAGATATAAAATTGAAGCATCTAAGGAACACTTCGCTATTATGGTGCGATTACTTACACACAATGG
TCAACTAGAGAAAGCTCAGAGATTTGAACAAATGAGTTCTTTCTTGTAG

Alignment

ORF - retro_gmax_11 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.44 %
• Parental protein coverage: 84.44 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FPSTTKTQSSSTKTSNLDQRGIPVDATTFSSVIAACIRTKSLPQGKEVHTHIRINGLENNAFLRTKLVHM
          F....K.....T.....DQRGIPVDATTFSSV.AACIR.KSLPQG.EVHTHIRINGLENN.FLRTKLVHM
Retrocopy FARQNKLKEALTILDYVDQRGIPVDATTFSSVVAACIRAKSLPQGREVHTHIRINGLENNSFLRTKLVHM

Parental  YTACGSLEDAQKLFDGLPCESVYPWNALLRGTVVSGKRRYIDVLKTYTEMRALGVELNVYSFSNVIKSFA
          YTACGSLEDAQKLFDGLPCESVYPWNALLRGTVVSGKR.YIDVLKTYTEMRALGVELNVYSFSNVIKSFA
Retrocopy YTACGSLEDAQKLFDGLPCESVYPWNALLRGTVVSGKRQYIDVLKTYTEMRALGVELNVYSFSNVIKSFA

Parental  GATAFLQGLKTHGLLIKNGLVDNYILRTSFIDKYFKCGKVMLACRVFEEIPERDIVVWGAMLAGFAHNRL
          GA.AF.QGLKTHGLLIKNGLVDNYILRTS.ID.YFKCGKV.LACRVFEEIPERD.VVWGAMLAGFAHNRL
Retrocopy GARAFSQGLKTHGLLIKNGLVDNYILRTSLIDMYFKCGKVRLACRVFEEIPERDVVVWGAMLAGFAHNRL

Parental  QREVLEYVRWMVEEGVKLSSVVMTIVIPVIWEVCLRRLGQEFHAYVVKTKSYSKLVPVQSALIDMYCKCG
          QREVLEYVRWMVEEGVK..SVVMTIVIPVI.EVC.RRLGQEFHAYVVKTKSYSKLVPVQS.LIDMYCKCG
Retrocopy QREVLEYVRWMVEEGVKPNSVVMTIVIPVIGEVCARRLGQEFHAYVVKTKSYSKLVPVQSSLIDMYCKCG

Parental  DMISARQVFYGSKERNVVCWTALMAGYAVNGKLKQALRSTIWMQQEGFRPDVVTLATVLPVCAQLRALEQ
          DMISAR.VFYGSKERNVVCWTALM.GYA.NGKL.QALRSTIWMQQEGFRPDVVTLATVLPVCAQLRALEQ
Retrocopy DMISARRVFYGSKERNVVCWTALMSGYAANGKLEQALRSTIWMQQEGFRPDVVTLATVLPVCAQLRALEQ

Parental  AKQIHAYALKHWFLPSVSVTSSLMTMYSKCGVFEYSRRLFDNMEQRNVISWTAMIDSYIENGYLCEALGV
          .KQIHAYALKHWFLP.VSV.SSLMTMYSKCGV.EYSRRLFDNMEQRNVISWTAMIDSYIENGYLCEALGV
Retrocopy GKQIHAYALKHWFLPNVSVASSLMTMYSKCGVVEYSRRLFDNMEQRNVISWTAMIDSYIENGYLCEALGV

Parental  IRSMQLSKHRPDSVELINMYGSFGD
          IRSMQLSKHRPDSV....M....G.
Retrocopy IRSMQLSKHRPDSVAIGRMLSVCGE

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_11 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	GLYMA18G48431	1 retrocopy	retro_gmax_11 ,