RetrogeneDB ID: retro_mtru_36

Retrocopy location

• Organism: Barrel medic (Medicago truncatula)
• Coordinates: 3:1703531..1704326(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: MTR_3g008920
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MTR_5g079570
• Aliases: None
• Description: None

Sequence

>retro_mtru_36
ATGGCAATCAAACACCAAGGAAACAATTCCCTCTTGAAACATTGTTGTTCATCAAGGCGTGTAATAACCTTGATACAAAA
GGTAACTGCAGAAGTTATTGGTACATATTTTCTAGTGTTTGCTGGGTGTGGTGCTGTAGCAGTAAACAAGATCCATGGCT
CTATCACTTTTCCAGGGATTTGCATCACTTGGGGGTTGATTGTAACAGTCATGTGTTACTCAGTTGGTCATATCTCTGGA
GGCCTCTTCAACCCTGCTGTTACCATCACCTGGGCTATTTTTCGCCGAATCACGATTAAAGAGGCTCCTTTGTACATTCT
TGCTCAATTACTTGGTTCTACACTTGCAAGTGTAACGTTATCTTTAATGTTTGACATCACACCCGAATCATATTTCGGAA
CTGTACCGGTCGGATCAAACTGTCAATCTTTAGTGTTAGAAATCATTATCAGTTTTCTCTTAATGTTTGTCATTTCAGCT
GTTACTACAGATGATAGAGCGGTCGATGACTCGGCAAGTATTGCGGTTGGAATGACATTAACATTGAATCTTTTTATTGC
TGGGCCTGTGTCAGGTGCATCTATGAACCCAGCAAGAAGTATTGGTCCTGCAATTGTGATACATATTTACAAAGGATTGT
GGATATATATAGTTGGTCCAATTATTGGAGCCATAGCTGGAGCACTTGCCTATAACTTTCTAAGATCAGCATACAAACCA
ACTTCAGAGACAATAGCAGACAAGCCAACTTCAGAATTAACAACAGACAAGCCAACTTCAGAGAACATTGTGTAG

Alignment

ORF - retro_mtru_36 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.69 %
• Parental protein coverage: 88.06 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EGNPNVMQLCCSSNNAITLIQKVIAEIIGTYFVVFAGCGSVAVDKIYGSVTFPGVCITWGLIVMVMSYSV
          .GN......CCSS...ITLIQKV.AE.IGTYF.VFAGCG.VAV.KI.GS.TFPG.CITWGLIV.VM.YSV
Retrocopy QGNNSLLKHCCSSRRVITLIQKVTAEVIGTYFLVFAGCGAVAVNKIHGSITFPGICITWGLIVTVMCYSV

Parental  GHISGGHFNPAVTITWTIFRRTSLKEAPLYIFAQLVGSTLASGTLSLMFDVTSKTYFGTVPVGSNGQSLV
          GHISGG.FNPAVTITW.IFRR...KEAPLYI.AQL.GSTLAS.TLSLMFD.T...YFGTVPVGSN.QSLV
Retrocopy GHISGGLFNPAVTITWAIFRRITIKEAPLYILAQLLGSTLASVTLSLMFDITPESYFGTVPVGSNCQSLV

Parental  VEIIISFLLMFVISAVSTDERAVNDFAGVAVGMTIMLNVFIAGPVSGGSMNPARSIGPALIVHVYKGLWI
          .EIIISFLLMFVISAV.TD.RAV.D.A..AVGMT..LN.FIAGPVSG.SMNPARSIGPA...H.YKGLWI
Retrocopy LEIIISFLLMFVISAVTTDDRAVDDSASIAVGMTLTLNLFIAGPVSGASMNPARSIGPAIVIHIYKGLWI

Parental  YVVGPIVGAIAGAIAYNFLRSIKSPS
          Y.VGPI.GAIAGA.AYNFLRS...P.
Retrocopy YIVGPIIGAIAGALAYNFLRSAYKPT

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_36 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_5g079570	1 retrocopy	retro_mtru_36 ,