RetrogeneDB ID: retro_mtru_67

Retrocopy location

• Organism: Barrel medic (Medicago truncatula)
• Coordinates: 5:20883546..20883915(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MTR_5g089130
• Aliases: None
• Description: None

Sequence

>retro_mtru_67
TTGTTCTCATACTTTCATTATATTTTTGTGAAGTGAAACATGTCTGAAGTTGCACAAGATGCGGTTAAACTTCATGTCCG
TTATGTAGATGTGAAAAAGAGGGCTTGGTTCACTATAAACCCCACCGACAAGTTGGACGAGTTGAAGGCAAAACTTGACG
ACTTCTTTATCAGTATTGGTTCAAATCACATAACATATTATGTAGTAGTACAAGTTTCAGGCGTGGACTTGGGGGAGGAT
AAGGAAGAGGACCGTTGGAAGACCGTGTATTTTCCACAACTAGTCAAAGATGATAGTGACGTTGATTACATGTTTCGCGA
GATGGTTGAAAATAACCTTTTACATCTTTATGTCCAATCCGTTGAAATT

Alignment

ORF - retro_mtru_67 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.24 %
• Parental protein coverage: 92.42 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LFTQIVSLIVKVNVTNETSSTLIKHQR-TDVKKRAWFTINPTDKLDELKAKLDDFFIHIGSNHRTYYVVV
          LF.......VK.N...........H.R..DVKKRAWFTINPTDKLDELKAKLDDFFI.IGSNH.TYYVVV
Retrocopy LFSYFHYIFVK*NMSEVAQDAVKLHVRYVDVKKRAWFTINPTDKLDELKAKLDDFFISIGSNHITYYVVV

Parental  QVPGVDLGEDKEEDRWKTVYFPQLVKDDSDVDYMFRVMVENNLLHLYVRSVEV
          QV.GVDLGEDKEEDRWKTVYFPQLVKDDSDVDYMFR.MVENNLLHLYV.SVE.
Retrocopy QVSGVDLGEDKEEDRWKTVYFPQLVKDDSDVDYMFREMVENNLLHLYVQSVEI

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_67 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Medicago truncatula	MTR_5g089130	2 retrocopies	retro_mtru_67 , retro_mtru_69,