RetrogeneDB ID: retro_mtru_17

Retrocopy location

• Organism: Barrel medic (Medicago truncatula)
• Coordinates: 1:12642171..12643011(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: MTR_1g035130
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MTR_2g084715
• Aliases: None
• Description: None

Sequence

>retro_mtru_17
ATGGCGGAACACTTAGCATCAATCTTCGGCACAGAAAAAGACAGAGTAAACTGCCCTTTCTACTTCAAGATCGGCGCGTG
TCGTCACGGCGACCGTTGCTCTCGTCTCCACAACCGACCCACAATCTCCCCAACTCTTCTCCTCTCCAACATGTACCAAC
GTCCCGACATCATCACCCCCGGCGTCGATCCAAACGGTCAACCAATCGATCCGCGTCAGATCCAACAACACTTCGAAGAT
TTCTACGAAGATATCTTCACCGAGCTTTCGAAATTCGGTTACGTTGAAACGTTGAATGTTTGTGATAATTTGGCTGATCA
TATGATTGGTAATGTTTATGTGCTTTTTAAAGAGGAAGATCATGCTGCTGCTGCGTTAGCGAGTTTGAGAGGGAGGTTTT
ATGAAGGGAGGCCGATTTTAGCGGATTTTTCTCCGGTTACGGATTTTCGTGAGGCGACTTGTCGGCAGTATGAGGAGAAT
AGCTGTAATCGTGGTGGTTATTGTAATTTTATGCATGTTAAGAAGATTGGTAGGGAGTTGAGGAGGAAATTGTTTTCTTC
GCAGCGGAGCAGGAGCCGGAGCAGGAGTAATAGTCCGAGGAGGAGAAGGAGAAGCAGAAGCAGAGAACGAGAGAGGCCGC
GTGATAGAGATTATGATTCGCGTGGAAGACGGAGTAGTGATAGGGATAGGGTTAGGGATGGAGATAGGGATAGGGAGAGG
AAAAGAGATAGTAGGGATAGAGATGGTGGGAGGAGAAATGGGAGGGAGGCAAGGGAAGGAAGTGAGGAAAGGCGAGCGAG
GATTGAGCAATGGAATAGGGAAAAAGAGGAGAAGCCATGA

Alignment

ORF - retro_mtru_17 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.23 %
• Parental protein coverage: 84.57 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAEHLASIFGTEKDRVNCPFYFKIGACRHGDRCSRLHTKPSISPTILLSNMYQRPDMITPGVDVHGQPID
          MAEHLASIFGTEKDRVNCPFYFKIGACRHGDRCSRLH..P.ISPT.LLSNMYQRPD.ITPGVD..GQPID
Retrocopy MAEHLASIFGTEKDRVNCPFYFKIGACRHGDRCSRLHNRPTISPTLLLSNMYQRPDIITPGVDPNGQPID

Parental  PRKIQDHFEEFYEDLFDELSKYGDIESLNVCDNLADHMVGNVYVQFREEEHAGNAVKNLTGRFYAGRPII
          PR.IQ.HFE.FYED.F.ELSK.G..E.LNVCDNLADHM.GNVYV.F.EE.HA..A...L.GRFY.GRPI.
Retrocopy PRQIQQHFEDFYEDIFTELSKFGYVETLNVCDNLADHMIGNVYVLFKEEDHAAAALASLRGRFYEGRPIL

Parental  VDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKRISRELRRQLFGKRHERHSRSRSRSPYRHRSYEERP
          .DFSPVTDFREATCRQYEEN.CNRGGYCNFMH.K.I.RELRR.LF.....R.SRSRS.SP.R.R....R.
Retrocopy ADFSPVTDFREATCRQYEENSCNRGGYCNFMHVKKIGRELRRKLFSSQRSR-SRSRSNSPRRRRRSRSRE

Parental  -HRSRSSKYDDRDR---DRDYHHDSD-SRRRRTSSPGRRRGRSPSRSRSPVGRRNRSPVRDGSEERRAR
          ..R.R...YD.R.R...DRD...D.D..R.R...S..R..GR...R.........R........E....
Retrocopy RERPRDRDYDSRGRRSSDRDRVRDGDRDRERKRDSRDRDGGRRNGREAREGSEERRARIEQWNREKEEK

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_17 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_2g084715	1 retrocopy	retro_mtru_17 ,