RetrogeneDB ID: retro_mtru_32

Retrocopy location

• Organism: Barrel medic (Medicago truncatula)
• Coordinates: 3:21589784..21592985(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: MTR_3g054400
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: MTR_2g098440
• Aliases: None
• Description: None

Sequence

>retro_mtru_32
ATGATGGAAAGTGGGCAGGCAGATACACGCAGGCATGAGTCTTACTCAGGAAGGGATTCACATGGTAGGTATTATGATCA
TGAATATGATAGAAAGCGAAACAGATATGAAGGTTCAAGGAGAAAGCCTAACAGATATGACTTGCACAATCGCCGATGGG
AATGGGAAGATGCTCCTCAAAGGGAAGAAACTCCATGGCATACTCCTTGTTCGTCCTTTAATTCACTTTCTCCTTTGGAT
CATGTTTCTCCGTCTCCTTTTCCAATACGGGCTTCTGGCTCTTCACACAAATCTTCTGTTGCTGGATATAATCGAAGATT
GCATAAACTCGCTTTTTCTTCAGATGAGGAGGAAATAGCAAATAAATCTGACTTGGGTGAAGAACATAAGTATGAGATTA
CTGAAAGCATGCGTCAAGAGATGGAATACAGTGCAGACCGAGCATGGTATGATAGAGAGGAAGGAAGTACATTGTTTGAT
TTTGATAACTCTTCACTTTTTGTTGGAGATGAGGCTTCGTTTCAGAAAAAAGAGGCCAAGTTGGCCAAAAGATTGGTCCG
AAGAGATGGCACTAAGATGTCCCTTTCTCAAAGCAAGAAATTATCTCAGCTTACTGATAATGCTCGATGGGAAGATCGGC
AGCTGCTGAGATCAGGTGCTGTTAGAGGCATAGAGGTTAAGACTGAATTTGATGATGAGGATGAAGGCAAGGTCGTTCTT
GTTGTGCATGATACAAAGCCTCATTTTCTTGATGGCAGAATTGTTTTTACCAAGCAGGCAGAGCCAGTTATGCCGATAAA
AGATCCAACATCTGACATGGCTATAATTTCTCGCAAAGGATCTGCGATGGTAAGAGAAATCCATGGGAAGCAGAGTTCAA
ACAAGTGTCGCCAACGCTTTTGGGAACTTGCAGGCTCAAAACTTGGTGATATATTAGGCGTTGAAAAAACAGCAGAAAAT
ATTGATGCAGACACTTGTATCGTGGGTGAAGATGGTGAAATTGATTTTAAGGAGGAAGCTAAGTTTTCAAACCACATGAA
GAAGGAAGAAGCTGTGAGTGACTTTGCTGTGTCAAAAACTCTTACCGAGCAAAGGCAATATCTGCCTATTTTTTCAGTGC
GGGAAGAGCTATTACAGGTGATTCGTGAAAATCAGGTTGTGGTTGTAGTTGGGGAAACTGGTTCAGGAAAGACAACCCAA
TTGACACAATATCTATATGAAGATGGCTACACTATAGGCGGTATAGTAGGTTGCACCCAACCAAGGCGTGTGGCAGCGAT
GAGTGTTGCCAAGAGAGTTAGCGAGGAGATGGACACGGAGTTGGGAGATAAAGTTGGCTATGCAATCCGTTTCGAAGATG
TGACTGGACCGAATACCATAATAAAGTACATGACGGATGGGGTACTTCTACGTGAAACACTTAAAGACTCTGATTTAGAC
AAATATAGGGTTATTGTGATGGACGAAGCCCATGAAAGGTCATTAAGCACAGATGTCCTTTTTGGAATATTGAAGAAAGT
TGTAACCCAACGCCGAGATTTCAAACTGATTGTCACATCAGCAACTTTGAATGCACAGAAATTTTCACATTTTTTTGGAA
ATGTTCCAATTTTTCATATTCCCGGGAGAACATTTCCTATCAATATATTATGGAGTAAAATTCCGGTTGAAGATTATGTT
AAAGGTGCAGTGAAGCAGGCTATGACTATTCACATGACCAGCCCTCCAGGTGACATCCTTATCTTCATGACTGGCCAAGA
CGAGATTGAGGCAGCTTGCTACTCCCTTGCTGAAAAAATGGAGCAGATGGTATCATCTTCAAATAAAGAAGTCCCGAAAC
TTTTGATTCTTCCCGTATATTCTCAGCTTCCAGCTGACTTGCAAGCAAAGATATTTCAGAAAGCTGAAGATGGTGCGCGC
AAATGCATTGTGGCCACTAATATTGCTGAGACATCACTAACCGTGGATGGTATCTTCTATGTTATAGACACGGGCTATGG
TAAAATGAAGGTGTACAACCCTAGGATGGGTATGGACGCTCTACAAGTCTTCCCGGTTAGCCAGGCTGCTGCTAACCAGC
GTGCTGGTCGAGCTGGTCGAACTGGCCCTGGGACATGCTATCGGTTGTATACAGAGAGTGCTTACCTAAATGAAATGTTG
GCCAGTCCTGTTCCAGAGATTCAGAGAACTAACCTTGGCAATGTCGTCTTGTTGCTGAAATCTCTTAAAGTTGAAAATTT
ACTCGACTTTGATTTCATTGATCCACCTCCGCAGGATAATATTCTTAATTCTATGTACCAGTTGTGGATGTTGGGTGCCC
TTAACAATGCGGGGAGATTGACTGAACTTGGCTGGAAAATGGTTGAGTTTCCACTGGATCCTCCACTTGCCAAGATGCTT
TTGATGGGTGAGCAGTTCGGGTGTCTTGAGGAGGTTCTGACCATAGTTTCCATGCTTTCAGTACCATCTGTTTTCTTTAG
GCCAAAGGACCGAGCAGCGGAGAGTGATGCTGCACGCGAAAGATTTTTTGTGCCAGAATCTGATCATTTAACGCTTTACA
ATGTCTATCAGCAATGGAAACAACATGATTACAGAGGTGATTGGTGCAATGACCATTTTTTGCATGTTAAAGGTCTAAGA
AAGGCTAGAGAGGTGAGATCCCAGCTGCTTGATATTCTCAAGACTCTAAAAATTCCGCTGACAACGTGCTTTCCTGATAC
AGACGTTGTTAGAAAAGCAATTTGTTCTGCATACTTCCACAATTCAGCAAGACTAATGGGTGTGGGGGAGTATGTTAACA
CGCGGAATGGAATGCCATGTTATCTTCACCCCAGTAGTGCTCTCTATGGCATGGGTTGTACTCCCGAATATGTGGTTTAT
CACGAGTTAATCCTAACCACCAAGGAGTACATGCAATGTGCCACAGCCGTAGAGCCCAAGTGGATGGCTGAGCTCGGACC
CATGTTTTTCTCCGTGACGGAGTCTGATACATCACTAATGGAGCATAAAAAGAAACAGAAACGAGAGAAAACGGCCATTG
AGGAGGAAGTGGAGAATTTAAAGAAGGAGCAAGCGAAGTTCGAGAGAGAAAATAAACGGAAGGAGATAGAAAAAAGGGCC
AAGAATCAGCAGCAGATTTCCATCCCAGGTTTAAAAAAGTGTTCTTCCACATTCTTGAGACCAAAGAAGTTTGGTTTGTA
A

Alignment

ORF - retro_mtru_32 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.7 %
• Parental protein coverage: 75.02 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EEEIADKSDLGEEHKYEITESMRQEMEYDADRAWYDREEGSALFDSDSSSLFLGDEASFQKKEAELAKRL
          EEEIA.KSDLGEEHKYEITESMRQEMEY.ADRAWYDREEGS.LFD.D.SSLF.GDEASFQKKEA.LAKRL
Retrocopy EEEIANKSDLGEEHKYEITESMRQEMEYSADRAWYDREEGSTLFDFDNSSLFVGDEASFQKKEAKLAKRL

Parental  VRRDGTKMSLSQSKKLSQLTADNAQWEDRQLLRSGAVRGTEVQTEFDDEDERKVILLVHDTKPPFLDGRV
          VRRDGTKMSLSQSKKLSQLT.DNA.WEDRQLLRSGAVRG.EV.TEFDDEDE.KV.L.VHDTKP.FLDGR.
Retrocopy VRRDGTKMSLSQSKKLSQLT-DNARWEDRQLLRSGAVRGIEVKTEFDDEDEGKVVLVVHDTKPHFLDGRI

Parental  VYTKQAEPIMPIKDPTSDMALISRKGSALVREIHEKQSSNKSRQRFWELAGSKLGDILGVEKTAEQIDAD
          V.TKQAEP.MPIKDPTSDMA.ISRKGSA.VREIH.KQSSNK.RQRFWELAGSKLGDILGVEKTAE.IDAD
Retrocopy VFTKQAEPVMPIKDPTSDMAIISRKGSAMVREIHGKQSSNKCRQRFWELAGSKLGDILGVEKTAENIDAD

Parental  TAVVGEDGEIDFKEEAKFSNHMKKGEAVSDFAMSKTLAEQRQYLPIFSVREELLQVIRENQVVVVVGETG
          T..VGEDGEIDFKEEAKFSNHMKK.EAVSDFA.SKTL.EQRQYLPIFSVREELLQVIRENQVVVVVGETG
Retrocopy TCIVGEDGEIDFKEEAKFSNHMKKEEAVSDFAVSKTLTEQRQYLPIFSVREELLQVIRENQVVVVVGETG

Parental  SGKTTQLTQYLYEDGYTIGGIVGCTQPRRVAAMSVAKRVSEEMDTELGDKVGYAIRFEDVTGPNTVIKYM
          SGKTTQLTQYLYEDGYTIGGIVGCTQPRRVAAMSVAKRVSEEMDTELGDKVGYAIRFEDVTGPNT.IKYM
Retrocopy SGKTTQLTQYLYEDGYTIGGIVGCTQPRRVAAMSVAKRVSEEMDTELGDKVGYAIRFEDVTGPNTIIKYM

Parental  TDGVLLRETLKDSDLDKYRVIVMDEAHERSLSTDVLFGILKKVVAQRRDFKLIVTSATLNAQKFSHFFGS
          TDGVLLRETLKDSDLDKYRVIVMDEAHERSLSTDVLFGILKKVV.QRRDFKLIVTSATLNAQKFSHFFG.
Retrocopy TDGVLLRETLKDSDLDKYRVIVMDEAHERSLSTDVLFGILKKVVTQRRDFKLIVTSATLNAQKFSHFFGN

Parental  VPIFHIPGRTFPVNILWSKTPVEDYVEGAVKQAMTIHVTSPPGDILIFMTGQDEIEAACYSLAERMEQMV
          VPIFHIPGRTFP.NILWSK.PVEDYV.GAVKQAMTIH.TSPPGDILIFMTGQDEIEAACYSLAE.MEQMV
Retrocopy VPIFHIPGRTFPINILWSKIPVEDYVKGAVKQAMTIHMTSPPGDILIFMTGQDEIEAACYSLAEKMEQMV

Parental  SSSNKEVPKLLILPIYSQLPADLQAKIFQKAEDGARKCIVATNIAETSLTVDGIFFVIDTGYGKMKVYNP
          SSSNKEVPKLLILP.YSQLPADLQAKIFQKAEDGARKCIVATNIAETSLTVDGIF.VIDTGYGKMKVYNP
Retrocopy SSSNKEVPKLLILPVYSQLPADLQAKIFQKAEDGARKCIVATNIAETSLTVDGIFYVIDTGYGKMKVYNP

Parental  RMGMDALQVFPVSRAAADQRAGRAGRTGPGTCYRLYTESAYLNEMLASPVPEIQRTNLGNVVLLLKSLKV
          RMGMDALQVFPVS.AAA.QRAGRAGRTGPGTCYRLYTESAYLNEMLASPVPEIQRTNLGNVVLLLKSLKV
Retrocopy RMGMDALQVFPVSQAAANQRAGRAGRTGPGTCYRLYTESAYLNEMLASPVPEIQRTNLGNVVLLLKSLKV

Parental  ENLLDFDFMDPPPQDNILNSMYQLWVLGALNNVGGLTELGWKMVEFPLDPPLAKMLLMGERLGCLEEVLT
          ENLLDFDF.DPPPQDNILNSMYQLW.LGALNN.G.LTELGWKMVEFPLDPPLAKMLLMGE..GCLEEVLT
Retrocopy ENLLDFDFIDPPPQDNILNSMYQLWMLGALNNAGRLTELGWKMVEFPLDPPLAKMLLMGEQFGCLEEVLT

Parental  IVSMLSVPSVFFRPKDRAEESDAARERFFVPESDHLTLYNVYQQWKQHDYRGDWCNDHFLHVKGLRKARE
          IVSMLSVPSVFFRPKDRA.ESDAARERFFVPESDHLTLYNVYQQWKQHDYRGDWCNDHFLHVKGLRKARE
Retrocopy IVSMLSVPSVFFRPKDRAAESDAARERFFVPESDHLTLYNVYQQWKQHDYRGDWCNDHFLHVKGLRKARE

Parental  VRSQLLDILKTLKIPLTTCFPDTDVVRKAICSAYFHNSARLKGVGEYVNTRNGMPCHLHPSSALYGMGCT
          VRSQLLDILKTLKIPLTTCFPDTDVVRKAICSAYFHNSARL.GVGEYVNTRNGMPC.LHPSSALYGMGCT
Retrocopy VRSQLLDILKTLKIPLTTCFPDTDVVRKAICSAYFHNSARLMGVGEYVNTRNGMPCYLHPSSALYGMGCT

Parental  PDYVVYHELILTTKEYMQCATAVEPQWMAELGPMFFSVKESDTSLLEHKKKQKREKTAMEEEMENLKKEQ
          P.YVVYHELILTTKEYMQCATAVEP.WMAELGPMFFSV.ESDTSL.EHKKKQKREKTA.EEE.ENLKKEQ
Retrocopy PEYVVYHELILTTKEYMQCATAVEPKWMAELGPMFFSVTESDTSLMEHKKKQKREKTAIEEEVENLKKEQ

Parental  AELERENKRKEKEKRAKSQQQISIPGLKKGSSTFLRPKKFGL
          A..ERENKRKE.EKRAK.QQQISIPGLKK.SSTFLRPKKFGL
Retrocopy AKFERENKRKEIEKRAKNQQQISIPGLKKCSSTFLRPKKFGL

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_32 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Medicago truncatula	MTR_2g098440	1 retrocopy	retro_mtru_32 ,
Triticum aestivum	Traes_2DS_D8DC6D0D3	1 retrocopy	retro_taes_86,