RetrogeneDB ID: retro_mtru_21

Retrocopy location

• Organism: Barrel medic (Medicago truncatula)
• Coordinates: 3:3188644..3189430(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: MTR_3g012040
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MTR_1g103100
• Aliases: None
• Description: None

Sequence

>retro_mtru_21
ATGGTCGTTGGTAAGAACAAGCGGATCTCTAAGGGGAAGAAAGGTGGCAAGAAGAAAGCTGCTGATCCATTTGCCAAGAA
GGATTGGTATGATATCAAAGCTCCTTCAGTCTTCCAGGTGAAGAATGTCGGCAAGACCCTCGTGTCCCGTACTCAGGGTA
CTAAGATTGCTTTAGATGGACTCAAGCATAGAGTGTTTGAGGTTTCATTGGTTGATCTTCAAGGAGACGAAGAACATGCA
TTCAGGAAGATTAGGTTGAGAGCTGAAGATGTTCAAGGGAAAAATCTTTTGACAAATTTTTGGGGGATGAATTTCACAAC
TGACAAACTGAGGTCATTGGTGCGTAAGTGGCAAACTCTTATTGAAGCCCATGTGGATGTCAAAACTACTGATAATTACA
CATTGAGGATGTTTTGCATTGGATTTACCAAGAGGAGAGCTAACCAGGTGAAGAGGACCTGTTATGCACAATCTAGTCAG
ATTAGACAGATCCGTAGGAAGATGGTTGAGATCATGATCAACCAAGCATCATCCTGTGATTTGAAGGGATTGGTCCACAA
ATTCATTCCCGAGATGATTGGGAAAGAGATTGAGAATGCCACTTCTAGTATTTACCCTTTGCAGAATGTGTTCATCCGAA
AAGTGAAGATCCTTAAAGCTCCCAAGTTTCATCTTGAAAAATTGATGGAGGTTCATGGAGATTACTCTGAGGATGTTGGC
ACAAAGGTAGAGAGCCCTGCTGATGAAATGGTGACAGAGGAACCTACTGAAATTGTTGGAGCTTGA

Alignment

ORF - retro_mtru_21 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.55 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAVGKNKRISKGKKGGKKKAADPFSKKDWYDIKAPSVFQVKNVGKTLVSRTQGTKIASDGLKHRVFEVSL
          M.VGKNKRISKGKKGGKKKAADPF.KKDWYDIKAPSVFQVKNVGKTLVSRTQGTKIA.DGLKHRVFEVSL
Retrocopy MVVGKNKRISKGKKGGKKKAADPFAKKDWYDIKAPSVFQVKNVGKTLVSRTQGTKIALDGLKHRVFEVSL

Parental  ADLQGDEEHAFRKIRLRAEDVQGKNLLTNFWGMNFTTDKLRSLVRKWQTLIEAHVDVKTTDNYTLRMFCI
          .DLQGDEEHAFRKIRLRAEDVQGKNLLTNFWGMNFTTDKLRSLVRKWQTLIEAHVDVKTTDNYTLRMFCI
Retrocopy VDLQGDEEHAFRKIRLRAEDVQGKNLLTNFWGMNFTTDKLRSLVRKWQTLIEAHVDVKTTDNYTLRMFCI

Parental  GFTKRRANQVKRTCYAQSSQIRQIRRKMVEIMINQASSCDLKGLVHKFIPEMIGKEIEKATSSIYPLQNV
          GFTKRRANQVKRTCYAQSSQIRQIRRKMVEIMINQASSCDLKGLVHKFIPEMIGKEIE.ATSSIYPLQNV
Retrocopy GFTKRRANQVKRTCYAQSSQIRQIRRKMVEIMINQASSCDLKGLVHKFIPEMIGKEIENATSSIYPLQNV

Parental  FIRKVKILKAPKFDLGKLMEVHGDYNEDVGTKVERPADEMVTEEPTEIVGA
          FIRKVKILKAPKF.L.KLMEVHGDY.EDVGTKVE.PADEMVTEEPTEIVGA
Retrocopy FIRKVKILKAPKFHLEKLMEVHGDYSEDVGTKVESPADEMVTEEPTEIVGA

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_21 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_1g103100	1 retrocopy	retro_mtru_21 ,