RetrogeneDB ID: retro_mtru_52

Retrocopy location

• Organism: Barrel medic (Medicago truncatula)
• Coordinates: 2:32455992..32456407(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MTR_0007s0410
• Aliases: None
• Description: None

Sequence

>retro_mtru_52
CTACAAATACATATGGTTATATTTTAGAGAAAATGTACAAAAGGCTCTCGACTTGGAAATGCAATCTCCTTAATAAAGCG
GGGAGAGTTTTCCCAACCAAATTGGTTACGACAGCAATACTTATTTATACTATGCAGTTTCATTATTTACCTACAAATAT
ATGTGATAAGATTGATAGAATCACCAAGAGCTTCATTTGGAATGACACGGGTCATAATAGGAAGTGGAATAGAGTTAATT
GTCTATGGTTACTTCCCCTAAGAAATTTGGAGGTCTTGCTATTAGGGAAGCTAGACTATCTAATATTGCTTTTCTAGGTA
AGTTAGTTTGGAATCTTCTTTATGATCCTCATAAATTATGGGTGAGGATTTTATCTCACAAGTACATTAAAGGTGGCGAC
ATTTGGAACATCAAA

Alignment

ORF - retro_mtru_52 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.61 %
• Parental protein coverage: 58.16 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  IKIRSNIFDLETESLNEISGSRNLVEETGWGQPGLAEMEFFTI-SKLLHYLPTNIYDKIDRVTKSFIWDD
          ..I...IF...............L.......QP.........I.....HYLPTNI.DKIDR.TKSFIW.D
Retrocopy LQIHMVIF*RKCTKGSRLGNAISLIKRGEFSQPNWLRQQYLFI<TMQFHYLPTNICDKIDRITKSFIWND

Parental  TGRNRNWNRVKW-SIVTCLKKFGGLAIREARLSNISLLWKLVWKFLYNPQKLWVRVFSQEYIKGDDIWNI
          TG.NR.WNRV...S.VT..KKFGGLAIREARLSNI..L.KLVW..LY.P.KLWVR..S..YIKG.DIWNI
Retrocopy TGHNRKWNRVNC<SMVTSPKKFGGLAIREARLSNIAFLGKLVWNLLYDPHKLWVRILSHKYIKGGDIWNI

Parental  K
          K
Retrocopy K

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_52 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_0007s0410	1 retrocopy	retro_mtru_52 ,