RetrogeneDB ID: retro_mtru_55

Retrocopy location

• Organism: Barrel medic (Medicago truncatula)
• Coordinates: 3:25391841..25392114(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MTR_4g066700
• Aliases: None
• Description: None

Sequence

>retro_mtru_55
CTAGATGAATCTTCACACATCAATCTTATTGTGTTCTTCATCTCATTATTGTTCCAATTCCATTCTTTTACCTCATCCAA
TTCCATTATGTCACCTGACCAGCAGCAGGGGCGGAGCCACCCCCCAGCTAGCCTGGGCTAATGCCCAGGCTCAGCTCCAA
CTTTCTTCGTAGCAAGCCCTACCATTACTAGAATTTTTAGCTTTTCCTGCGGATTTTTGTGTAAATTCCGCAAGAAATGT
ATTTCTTGCAAATTTTGCCAAGGATTTAGGTTC

Alignment

ORF - retro_mtru_55 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.68 %
• Parental protein coverage: 75.4 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IKHEERIGLIANYFILQVLNLSYKALGSYLSSYRALGRSHPPASLSTSPGSAPTFFVVSPVITRTFSVFC
          ......I.LI.....L.....S.....S..S.....GRSHPPASL...PGSAPTFFV.SP.ITR.FS...
Retrocopy LDESSHINLIVFFISLLFQFHSFTSSNSIMSPDQQQGRSHPPASLG*CPGSAPTFFVASPTITRIFS---

Parental  GFTCGILCKFRRKHISCRFCQGFRF
          .F.CG.LCKFR.K.ISC.FCQGFRF
Retrocopy -FSCGFLCKFRKKCISCKFCQGFRF

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_55 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_4g066700	1 retrocopy	retro_mtru_55 ,