RetrogeneDB ID: retro_mtru_14

Retrocopy location

• Organism: Barrel medic (Medicago truncatula)
• Coordinates: 8:26044639..26045983(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: MTR_8g062330
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MTR_7g096040
• Aliases: None
• Description: None

Sequence

>retro_mtru_14
ATGGAACCGCAGACTGGCCCTTCGGCCTTCGCCACTTCTTCCATCCACAAGCGCAAACACCTGTCCGAGGATCACTCGCC
TCCATTCCACCCTTCTTGCGACTCTTCGATGCACAACTTCACCGGTTCTGTCAACAGTTTGGCCACTACTTCCGGTTCTG
TCCCCGACTTTGTGGTTAAGGACGAAGCCGCAACAAATATATTCACTGAAAACTTGCAGATAAGAGGTGGTTACAGTGCC
AGGGAAGAGAGTCTTAAGAAAGAGGAAGAATCTGGATTACTCAAATTTGTATGCGTGTGCAATGATGGTGTTGATGACCA
TATGGTTTCGTTGATAGCATTAAAGAATATATTTGCCAGACAACTTCCCAATATGCCAAAGGAGTACATTGTCCGACTTA
TTATGGATAGGAACCATAAGTCTATAATGGTTATAAGGGAGCCTAATCGCGTTGTTGGAGGCGTTACATATCGTCCATAT
GCAAATCAGAGGTTCGCTGAGATAGCCTTTTGTGCAATTAGTGATGATCGACAAGTAAAAGGTTATGGTACCAGATTGAT
GAATCACTTGAAACAGTATGCACGTGATGTAGATGGACTGACACATTTTCTCACGTATGCTGATAATAATGCTATTGGCT
ATTTCATCAAACAAGGTTTTACAAAAGAGATTCACTTGGAGAAAGATCGATGGGAAGGTTATATAAAGGATTATGATGGG
GGAACTCTCATGGAATGTAAGCTTGATCCAAAGATTCCTTATACTGATTTAACAACTATGATCCGTCGGCAAAGACAGGC
ACTATTTGAAAAGATTAGAGAACTATCAAACTGTCACAATATTGTTTATGCTGGAATTGATTTTCAGAAGAGATCAGAAG
ATGGAGTTATTCCTAATAGAATTGTTGATGACATCCCTGGTTTGAAAGAGGCTAAATGGACTCCTGATATGTACGGTCAC
TCGCGGTTTAGAGCTTTAGATGGTTCTACTGACCATGCTACAAACCTAAAACATTTAACTGAGTTTATGCGGTCAATTCT
AAAGGAAATGCATGATCACCCTGATGCTTGGCCATTTAAGGAGCCTGTTGATGCACTGAGTGTTCCTGGTTATTATGAAA
TCATCAAGAATCCGATGGATCTAAAGACAATGAGTGAGAGGCTGGAGTCAGAACAATATTACGTCACATTTGAGATGTTT
CTCGCGGATGCCAGAAGAATGTTTGAGAATGCACGAACCTATAATCCTCCAAAAACCATATATTACAAATGTGCTACAAG
ACTAGAAGCACACTTTCAAAGCAAAGTGACAACACTCCTACAGTCTGGCTTCAAAATTCAGTAG

Alignment

ORF - retro_mtru_14 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.56 %
• Parental protein coverage: 73.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VTGAGAGGGSVPGIVVKEDA-TKIFTENLQTSGAYSAREESLKKEEETGKLKFTCLSNDGVDQHMVWLIG
          V.......GSVP..VVK..A.T.IFTENLQ..G.YSAREESLKKEEE.G.LKF.C..NDGVD.HMV.LI.
Retrocopy VNSLATTSGSVPDFVVKDEAATNIFTENLQIRGGYSAREESLKKEEESGLLKFVCVCNDGVDDHMVSLIA

Parental  LKNIFARQLPNMPKEYIVRLVMDRSHKSVMVIRR-NHVVGGITYRPYASQRFGEIAFCAITADEQVKGYG
          LKNIFARQLPNMPKEYIVRL.MDR.HKS.MVIR..N.VVGG.TYRPYA.QRF.EIAFCAI..D.QVKGYG
Retrocopy LKNIFARQLPNMPKEYIVRLIMDRNHKSIMVIREPNRVVGGVTYRPYANQRFAEIAFCAISDDRQVKGYG

Parental  TRLMNHLKQYARDVDGLTHFLTYADNNAVGYFIKQGFTKEIHLEKDRWHGYIKDYDGGILMECKIDPKLP
          TRLMNHLKQYARDVDGLTHFLTYADNNA.GYFIKQGFTKEIHLEKDRW.GYIKDYDGG.LMECK.DPK.P
Retrocopy TRLMNHLKQYARDVDGLTHFLTYADNNAIGYFIKQGFTKEIHLEKDRWEGYIKDYDGGTLMECKLDPKIP

Parental  YTDLSTMIRRQRQAIDEKIRELSNC-QVVHEGLNFYK--NEAGIPMKIIKDIPGLGGDVGWSPDQWGHSR
          YTDL.TMIRRQRQA..EKIRELSNC...V..G..F.K......IP..I..DIPGL.....W.PD..GHSR
Retrocopy YTDLTTMIRRQRQALFEKIRELSNCHNIVYAGIDFQKRSEDGVIPNRIVDDIPGL-KEAKWTPDMYGHSR

Parental  FRTLGGSTDIATNLKHLTAFMRTLLKTMHDHADAWPFKEPVDELDVPDYYQIIKDPIDLKTMSKRVESEL
          FR.L.GSTD.ATNLKHLT.FMR..LK.MHDH.DAWPFKEPVD.L.VP.YY.IIK.P.DLKTMS.R.ESE.
Retrocopy FRALDGSTDHATNLKHLTEFMRSILKEMHDHPDAWPFKEPVDALSVPGYYEIIKNPMDLKTMSERLESEQ

Parental  YYVTFEMFVEDVKRMFSNARTYNSPETIYYKCATRLEAHFQSKVHSILQSGNKVQ
          YYVTFEMF..D..RMF.NARTYN.P.TIYYKCATRLEAHFQSKV...LQSG.K.Q
Retrocopy YYVTFEMFLADARRMFENARTYNPPKTIYYKCATRLEAHFQSKVTTLLQSGFKIQ

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_14 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_7g096040	1 retrocopy	retro_mtru_14 ,