RetrogeneDB ID: retro_mtru_29

Retrocopy location

• Organism: Barrel medic (Medicago truncatula)
• Coordinates: 3:4703323..4704031(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: MTR_3g015950
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MTR_8g028870
• Aliases: None
• Description: None

Sequence

>retro_mtru_29
ATGAGGATTCGAAAAGCCGCGAAGATTTCCCCTCTTCTATTCACTTGTTCGTCTTCACTACTACAAAATGATTCATTACC
GGTTGAACCTTTTCAAATGCACGTTTGTCAGCTTAACCAATCTCCATGGGATGCCATCCCCTTTCACTTTGACAAATCCT
CAATCCAGTTCGAAGATTCTCTAGCAGCTCTTGATGAAAGTGTGGCTTCGATGATGGAAACTGACATTGTTGATATTGAT
AATAAAACTGTGATAGAAAATTCTTCTATCATGGCGATTGACAATAATCAACAATGTGATGGTAATAAGAAGGTAGTTAA
TAATAATGGTGGCTGCAACAAAGGTTTGAAGAGAAACTCAAATGGGGGAGGAGACATTGAGGCGCCGCGGCGTGGTAGAG
GCAGACCGAAGAAGGTGAAAGCGGATTCAGCTTCAGGTTCGAATAATAATGAATTCTATTTTTATTCTGGGTTTGGTCCA
CCACGAGGGAAACGAAGAGGTGATAAAAATGATGGTGAAGATAACAAGAGTGTTGTAGCATTAGGTAGTAGTAGTCATGA
TGTTAAGGTTAATGTTGGTGTTGATGTTGTTCCTTGTTCTGAGGGATTGAATTATTTTGAAGATTATGAGGATGAATATG
ATGATGATAATGGGAAGAGGAGAATGAGGAAACCCGTGAAAGAAAGGTCACTAAAATCGTTAATGTGA

Alignment

ORF - retro_mtru_29 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.14 %
• Parental protein coverage: 97.06 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KNGSFPIETFQAHVCHLNQSPWDVI--HQFEDGLKNGDSFVALGESVASMMETEAEGVVDIDNRPAIENF
          .N.S.P.E.FQ.HVC.LNQSPWD.I..H.........DS..AL.ESVASMMET.....VDIDN...IEN.
Retrocopy QNDSLPVEPFQMHVCQLNQSPWDAIPFHFDKSSIQFEDSLAALDESVASMMETD---IVDIDNKTVIENS

Parental  DMMVLDDNQK----KKVVNNNSGGNKGLKRNLNGG-DIEAVPQRGRGRPKKASGSGSSLNNNNNSNEF--
          ..M..D.NQ.....KKVVNNN.G.NKGLKRN.NGG.DIEA.P.RGRGRPKK......S..NNN.......
Retrocopy SIMAIDNNQQCDGNKKVVNNNGGCNKGLKRNSNGGGDIEA-PRRGRGRPKKVKADSASGSNNNEFYFYSG

Parental  FGPLWGKQRKGGKYEDEDNKGAITLATSGDD-KVNVGVDVNVAPCYSEGLDYVENYED--DDYNGKRRVR
          FGP..GK.R.G.K...EDNK....L..S..D.KVNVGVD..V.PC.SEGL.Y.E.YED..DD.NGKRR.R
Retrocopy FGPPRGK-RRGDKNDGEDNKSVVALGSSSHDVKVNVGVD--VVPC-SEGLNYFEDYEDEYDDDNGKRRMR

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_29 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_8g028870	1 retrocopy	retro_mtru_29 ,