RetrogeneDB ID: retro_mtru_15

Retrocopy location

• Organism: Barrel medic (Medicago truncatula)
• Coordinates: 3:55413522..55414671(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: MTR_3g118390
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MTR_8g074350
• Aliases: None
• Description: None

Sequence

>retro_mtru_15
ATGAAAGGTATTGTTTCCTCATCTAATATAATAATGTATTTATTTATTATTATTATTATTATTAAGATTAAGATAGAGCA
TTACCTTACCTTACCGCGCCTATATAATATAGATGGATGGGGGAGTTGGTATCTACACAAACAAATAACACACAATTACA
AAGCGTTGTTAATGATGATGAGGTTGGCACTAGTAGTAACAACAGCAGTTCTACTTGTAATTATAGGATGCTCCTTTGCG
GAGCAATGCGGTAAACAAGCTGGGGGTGCGTTGTGCCCAGGGGGATTATGTTGTAGCAAGTTTGGTTGGTGTGGATCAAC
CGGCGACTACTGTGGTGATGGTTGTCAGAGTCAATGTAGTGGAAGCAGCGGTGACCTTGGTAGCCTCATCTCAAGGGACA
CCTTCAACAATATGCTCAAGCACCGTGACGACAGTGGGTGTCAGGGAAAAAGATTGTACACCTATGATGCTTTCATCTCA
GCTGCCAAGGCTTTCCCCAACTTTGCCAATAATGGAGATACTGCAACTAAAAAAAGAGAGATTGCTGCTTTCTTGGGTCA
AACATCACACGAAACCACAGGTGGATGGGCAACTGCACCTGATGGCCCATATGCTTGGGGATACTGCTTTGTGAGAGAAC
AGAATCCCAGCAGCACATACTGCCAACCAAGCTCTGAATTCCCATGTGCTTCTGGGAAGCAATACTACGGTAGGGGTCCC
ATCCAGATCTCTTGGAATTACAACTATGGACAGTGTGGAAGAGCAATTGGTGTTGACTTGCTCAACAATCCAGACCTCGT
AGCCACCGACCCTGTTATATCCTTCAAGACCGCTCTATGGTTCTGGATGACGCCCCAGTCACCTAAGCCATCCTGCCATG
ACGTTATCACCGGAAGATGGAGTCCTTCCAGTGCAGATCGTGCGGCAGGGAGGCTCCCGGGATACGGTACGGTGACCAAC
ATAATAAACGGAGGGCTTGAATGCGGAAGAGGACAGGATGGAAGAGTGCAGGATCGAATTGGATTTTACAAGAGATATTG
TGACATACTTGGAGTTGGATATGGAGACAATCTTGATTGTTTTTCTCAAAGGCCTTTCGGATCTTCACTTTCACTATCAT
CCCTCTTCCTCAACTCCATCGACACCTAG

Alignment

ORF - retro_mtru_15 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.98 %
• Parental protein coverage: 76.25 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SGGDVGSLISSSMFDEMLKYRNDPRCAARGFYSYDSFITAARSFNGFGTTGDENTRKREVAAFLGQTSHE
          S.GD.GSLIS...F..MLK.R.D..C.....Y.YD.FI.AA..F..F...GD..T.KRE.AAFLGQTSHE
Retrocopy SSGDLGSLISRDTFNNMLKHRDDSGCQGKRLYTYDAFISAAKAFPNFANNGDTATKKREIAAFLGQTSHE

Parental  TTGGWPTAPDGPYAWGYCFVNERNPPSDYCSPGT-WPCAPGKRYYGRGPIQLTHNYNYGPAGRAINQDLI
          TTGGW.TAPDGPYAWGYCFV.E.NP.S.YC.P....PCA.GK.YYGRGPIQ...NYNYG..GRAI..DL.
Retrocopy TTGGWATAPDGPYAWGYCFVREQNPSSTYCQPSSEFPCASGKQYYGRGPIQISWNYNYGQCGRAIGVDLL

Parental  NNPDLVSSNPSVSFRTALWFWMTPQGNKPSSHDVITGRWTPSDADRSARRVPGYGVITNIINGGLECGRG
          NNPDLV...P..SF.TALWFWMTPQ..KPS.HDVITGRW.PS.ADR.A.R.PGYG..TNIINGGLECGRG
Retrocopy NNPDLVATDPVISFKTALWFWMTPQSPKPSCHDVITGRWSPSSADRAAGRLPGYGTVTNIINGGLECGRG

Parental  QDPRVEDRIGFYKRYCQLLRTTTGDNLDCYNQRPF
          QD.RV.DRIGFYKRYC..L....GDNLDC..QRPF
Retrocopy QDGRVQDRIGFYKRYCDILGVGYGDNLDCFSQRPF

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_15 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_8g074350	1 retrocopy	retro_mtru_15 ,