RetrogeneDB ID: retro_mtru_12

Retrocopy location

• Organism: Barrel medic (Medicago truncatula)
• Coordinates: 2:27098647..27099304(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: MTR_2g063927
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MTR_4g125510
• Aliases: None
• Description: None

Sequence

>retro_mtru_12
ATGCCTGTCAGATGGATTCTTCACTGGCAACCGAGTCAAGGCACAACGGTGAACAGCCACATACTGAATGAAATTTCACA
GTGTGTTGAAAATTTCAATGGCGTCAAAGACGGAAGATGCAAGACTACCATTACTTTCTACAAACCCAATTTAAAAGACC
AATCAATGAGTGCTCAATTCCCTCGTGATTTTCTTGGGATATCGCTTATGGAACAACCCAACAAATATTACTTGATCATT
CGTGACAATAAGCTTGTTGCTGAGGCTGATTCTTCAATCTTAACTATCATGGAGAAACTTCAGTCCTATAAATCTAAGGT
TGCACTGAATTGTGAGGGTTTGCAGTATAATCTGGGTGATTTTCAGATGAGACTGATTAAAGTTGTGCCAAATCAAGCTG
AAAGTCTCAGAGGAATTCTAATGGAGATTGAGTATCTCCCTATTTCTTCACTTGAAAATGCCAAGCCAATTATGGAAGAG
TTCATAGAAATATGGCGAGAAGTGTTGTCCAAGAAATCATTACCTGGCCAGTTCATGCGAGCGGAACCAATCTTTGCAGA
TTACGGGCTCTCTGACAATTATAGCTTGCAACACACAGCTGTCCAGTATGCTGCTGCATTGCCCCAACTATTTGCATCAG
TTCAGTTAAGGAGTTAG

Alignment

ORF - retro_mtru_12 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.57 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MPVRWILHWQPSQGAVVNSHILNEISQCVENLNGVKDGRTKATLTFYRPNLRDQSLSSEFPRDFLGISLM
          MPVRWILHWQPSQG..VNSHILNEISQCVEN.NGVKDGR.K.T.TFY.PNL.DQS.S..FPRDFLGISLM
Retrocopy MPVRWILHWQPSQGTTVNSHILNEISQCVENFNGVKDGRCKTTITFYKPNLKDQSMSAQFPRDFLGISLM

Parental  EQPNKYYFIIRGHKLAVEADSSILTIMEKLQSYKSKVTLNFEGTQYKLGDFQVRMIKVVPNQAENLRGIL
          EQPNKYY.IIR..KL..EADSSILTIMEKLQSYKSKV.LN.EG.QY.LGDFQ.R.IKVVPNQAE.LRGIL
Retrocopy EQPNKYYLIIRDNKLVAEADSSILTIMEKLQSYKSKVALNCEGLQYNLGDFQMRLIKVVPNQAESLRGIL

Parental  MEIEYLPNSSVEKVKPIMEEFIEIWRDVLSKKSLPGQFMRTEPIFVEYGLSDHYTWQHTAVQYAAALAQL
          MEIEYLP.SS.E..KPIMEEFIEIWR.VLSKKSLPGQFMR.EPIF..YGLSD.Y..QHTAVQYAAAL.QL
Retrocopy MEIEYLPISSLENAKPIMEEFIEIWREVLSKKSLPGQFMRAEPIFADYGLSDNYSLQHTAVQYAAALPQL

Parental  IASVQVRN
          .ASVQ.R.
Retrocopy FASVQLRS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Medicago truncatula was not studied using RNA-Seq expression data.

ChIP-Seq

Medicago truncatula was not studied using ChIP-Seq data.

EST

Medicago truncatula was not studied using EST data.

TSS

Medicago truncatula was not studied using FANTOM5 data.

Lab

retro_mtru_12 was not experimentally validated.

Homology

Retrocopy orthology:

Medicago truncatula 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
Medicago truncatula	MTR_4g125510	1 retrocopy	retro_mtru_12 ,