RetrogeneDB ID:

retro_mtru_9

Retrocopy
location
Organism:Barrel medic (Medicago truncatula)
Coordinates:1:18219458..18222635(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:MTR_1g048130
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:MTR_7g107440
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mtru_9
ATGGAAGATCAACCTCCACCTTCAACTCGTCGTTCCAAGAGGGGTAGACCTCTAAAGCAACCGCCAAAGGAAATCGATAC
CGATGTAGATATGGCGGAACATGAAAGTTTGCCGGAAGATTTCGAAGAAGCACGTCCGGTTCCTAAATCGAAGCAAAATC
GTGCTAACAAAGGAACTGCTGGGGCGACGCTTAAACCTACTGATCAGACTTTGTTTGAAACAATCAAAGGTAACGGAAAA
CTTATTCCTCATGTAGTAAAACTTTGGGTTGAAAGCTATGAAAAAGATCCAAAATCTGCTATGGTTGAACTCTTGACAAT
GCTGTTTGAGGTATGTGGAGCCAAATTTCACGACAAAAGGGTTCTCATGCATGAGATTAACGTTAATGATGTTGTTGTTG
CTCTTGTCAACTATGCAAAAAAAAGTGGTGAAGTTGAATGTTATCAAAATTCCATAAAGAAGGAGTTTAAAAACTTGAAA
GAGAATCTAGAATCATTCTGGGATAATTTGGTACGTGAATGTCAGCATGGACCTTTGTTTGACAAAGTTTTATTTGAAAA
GTGCATGAAGTACATCATTGCACTTTCATGCACCCCTCCACGAGTTTATCGTCAAGTTGCTTCATTGATGGGTCTTTCAT
TGATCACATCATATATAACTATTGCTAATATGCTTGCTGTACAACGAGACATTACTCGTAGACAATTGGATGGTCAAAAG
AAGAAAAAATCCGAGGGGCCTCGGATGAAGTCACTAAATATAAAGTTGTCGGATATGCACGATAAAATAACATTGTTGGA
GGAGATGATGGGCAAGATATTTACTGGGTTATTTGTGCATCATTACCGGGACCTTGATCCAAATATTAGAATGTCATGCA
TTGAATCGCTCGGTGTATGGATCCTGTCATACCCATCAATTTTTTTGAAGGATGTATACTTGAAATATCTTGGGTGGACA
CTGAATGACAAATATGCTGGTGTAAGAAAATCTTCAATAAGAGCACTGCAAAATCTCTATGAGATGGATGATAAAGTACC
GTCCCTTGGTTTGTTTACTGAGAGATATTCTGGCCGGATGATTGAGCTTGCTGATGACATTGATGTTGATGTGGCTGTTC
AGGCCATAGGCCTTGTTAAACAACTGATTAGACATCAATTTATTACCGGAGATGAATTAGGTAATTTGTATAATTTGCTG
ACTGATGATCCTCCAGAAATCAGGCATGCCATTGGAGCATTAGTATATGATCACTTGATTGCTAAAAAATTTAATAGCTC
CGAATCAGAATCAAGAGGTGAAAATGACAATTCTTCTAAGGTCCATCTTGAAAGAATGTTGCGGATTCTGGATGAGTTCC
CACCTAATCCAATTTTGACTAGTTGTATGATTGATGATGTGTGGGATTACATGGAAGCTATGAAGGATTGGAAGTGCATC
ATATCCATGCTCCTTGATGAAAATTCATTAATCACCAACGAAAGTAAAACAAACTTGGTTCGTCTCCTATGTGCATCGGT
GAAAAAGGCTGTTGGAGAGAAGATTGTTCCTGCTATTGATAACAGAAAGCAGTACTACAACAAAACCCAAAAAGAAGTAT
TTGAAAATAATAAACACGATATTACTATTGCCATGATGGAGAGTTTCCCATTACTCTTGCAGAAGTTTATTTCGGATGAA
GCTAAAGTGTCATTGCTGGTCGAGATTGTTTTGTATATGAATCTTGAATTTTATTCTTTGAAGAGGCAGGAACAGAATTT
CAAAAATCTCCTCCAGCTTATGAAAAATGCATTTTTTAAGCATGGTGACAAGGAACCTCTGAGAGGTTGTGTGAAGGCAA
TTAATTTCTGTTGTGTAGAAAGTCGAGGGGAATTGCAAGATGTTGCTCGAAACAATTTAAAGGAAGTCGAGGATTTAGTT
ATTGACAAATTGGAATCTGCAATTAGAGAAGTAAAGGCCGGGGGTGATGAATATTCTCTTCTTGTAAATTTGAGAAGGTT
GTATGAACTTCAATTGTCTAAATACGTGCCTATTGATAAACTATATGAAGACATTGTAATGGTGCTACGTGATGTTAGGA
ATATGGAAGATGAGGTTGTTGGTTTGCTGCTTCAGAACTTGTATTTTGATCTGGCTTGGAGTTTGAAGTTTGTACTAGAC
GGAGAAAGTGTTTCGGATGCATCATTAAAGACTCTCCTATCGAAGCGTGATACTTTGTTACAAGAACTTGAATACTTCGT
AAATTTGGTAACTGATGAAAGCAATGAAGGAGATAAAAGTGGAAGTGAACTTGGCGGCAGAGTATGCACAATGCTTGCAG
AAACATGGTGCTTATTTAGGATGACAAATTTTAGTAAGACAGGGCTGGAAAGATTGGGATATCGGCCTAATTCATATGTG
CTTCAAAAGTTCCAGAAACTTTGTCAACAACAGCTAAATGTTTCAGACGAGGTAGAAGATGACGATGTAAACAAAGAGGA
GACAAATAGATGTGCTGTTTTAGTTGGTGCTTGCAAGCTGATTTATACTGATGTTGTCCCAAAGGATTATCTTGCTCCGG
AGATTATTTCGCATTTTGTAATGCATGGAACCGGTGTGGCTGAGATTGTAAAAAACTTGATCACATTTTTGAAAAAAAGA
AAGGATGATTTGGCTGACATTTTTCTTGAAGCACTTAAAAAGGCATACCACCGGCATACTGTCGATAACTCTGGAAATGA
TGATATGTCATCAGAAAACCTTTTCTCAGAATGTAAAAATCTGGCTGTTCAGCTTTCTAGAACCTACATCGGTGGTGCCC
GGAACAAGTACAAGTCAGAAATTTTAAAACTTGTCAAGGATGGTATTGAATATGCTTTTGAAGATGCTCCAAAACATTTG
TCTTTTCTGGAAGCGGCAGTGGTCCATTTTGCGGCAAAACTCCCTGCATCAGATGTGTTGGAAATTAAGAAGGACGTTGA
AAAGAGAACAGAAAATGTAAATAAAGATGAAAATCCCAATGGCTGGCGTCCCTATTGCACATTTGTTGAGGTCTTGCAGG
AAAAAGGCGCGAAGAATGAAGTCTTTCAAATTATAAAAGAAGGGGTTTCTGTTAAGCGTCAGGGTCGTCCACAGGGAAAG
AAGCTTTCTTATGACCATAGCTCAAGTGAAGATGAGGATTCCATTAGTACATCCTAA

ORF - retro_mtru_9 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.77 %
Parental protein coverage: 92.65 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMEDQPPPSEVSTRRSKRGRPPKQPPKEIDVDVDMAERESSPEDSDEPRPVQKSKRNRVKEGTTSTTLKPT
MEDQPPP...STRRSKRGRP.KQPPKEID.DVDMAE.ES.PED..E.RPV.KSK.NR...GT...TLKPT
RetrocopyMEDQPPP---STRRSKRGRPLKQPPKEIDTDVDMAEHESLPEDFEEARPVPKSKQNRANKGTAGATLKPT
ParentalDETLIEAIKGNGKLIPHVVKLWVESYEKDPRSAMVELLTMLFEACGAKFHDKRDLMHEIDVDDVVVALVN
D.TL.E.IKGNGKLIPHVVKLWVESYEKDP.SAMVELLTMLFE.CGAKFHDKR.LMHEI.V.DVVVALVN
RetrocopyDQTLFETIKGNGKLIPHVVKLWVESYEKDPKSAMVELLTMLFEVCGAKFHDKRVLMHEINVNDVVVALVN
ParentalCAKR-GEVEDYQNSKKKEFKNFKENLESFWDNLVRECQHGPLFDQVLFDKCMDYIIALSCTPPRVYRQVA
.AK..GEVE.YQNS.KKEFKN.KENLESFWDNLVRECQHGPLFD.VLF.KCM.YIIALSCTPPRVYRQVA
RetrocopyYAKKSGEVECYQNSIKKEFKNLKENLESFWDNLVRECQHGPLFDKVLFEKCMKYIIALSCTPPRVYRQVA
ParentalSLMGLSLVTSYITVANMLGVQRETTRRQLDAEKKKKTEGPRMESLNKRFSDMHEKITLLEEMMRKIFTGL
SLMGLSL.TSYIT.ANML.VQR..TRRQLD..KKKK.EGPRM.SLN...SDMH.KITLLEEMM.KIFTGL
RetrocopySLMGLSLITSYITIANMLAVQRDITRRQLDGQKKKKSEGPRMKSLNIKLSDMHDKITLLEEMMGKIFTGL
ParentalFVHRYRDIDPNIRMSCIESLGAWILSYPSLFLQDLYLKYLGWTLNDKNAGVRKTSIRALQNLYEMDDNIQ
FVH.YRD.DPNIRMSCIESLG.WILSYPS.FL.D.YLKYLGWTLNDK.AGVRK.SIRALQNLYEMDD...
RetrocopyFVHHYRDLDPNIRMSCIESLGVWILSYPSIFLKDVYLKYLGWTLNDKYAGVRKSSIRALQNLYEMDDKVP
ParentalTLGLFTERFSGRMIELADDIDVAVAVQAIGLVKQLFRHQLIPEDDLGNLYDLLIDDPPEIRHAIGALVYD
.LGLFTER.SGRMIELADDIDV.VAVQAIGLVKQL.RHQ.I..D.LGNLY.LL.DDPPEIRHAIGALVYD
RetrocopySLGLFTERYSGRMIELADDIDVDVAVQAIGLVKQLIRHQFITGDELGNLYNLLTDDPPEIRHAIGALVYD
ParentalHLIAQKFISSQSESRGENVSPSEVHLTRMLRILDEFPPNPILTIYVIDDVWDYMKAIKDWKCIISMLLDE
HLIA.KF.SS.SESRGEN...S.VHL.RMLRILDEFPPNPILT...IDDVWDYM.A.KDWKCIISMLLDE
RetrocopyHLIAKKFNSSESESRGENDNSSKVHLERMLRILDEFPPNPILTSCMIDDVWDYMEAMKDWKCIISMLLDE
ParentalNSSITDKSKTNLVRLLCASVKKAVGEKIVPAIDNRKQYHSKAQKEVFENNKQDITVAMMEKYPELLRKFI
NS.IT..SKTNLVRLLCASVKKAVGEKIVPAIDNRKQY..K.QKEVFENNK.DIT.AMME..P.LL.KFI
RetrocopyNSLITNESKTNLVRLLCASVKKAVGEKIVPAIDNRKQYYNKTQKEVFENNKHDITIAMMESFPLLLQKFI
ParentalSDKAKVSLLVEIVMYMNLEFYSLKRQEQNFKNLLQLMEDAFLKIGDKDPLRACVKAINFCCVESRGELQD
SD.AKVSLLVEIV.YMNLEFYSLKRQEQNFKNLLQLM..AF.K.GDK.PLR.CVKAINFCCVESRGELQD
RetrocopySDEAKVSLLVEIVLYMNLEFYSLKRQEQNFKNLLQLMKNAFFKHGDKEPLRGCVKAINFCCVESRGELQD
ParentalFARIKLKKLEVKIIKNLKSAISEVKAGGDEYSLLVNLKRLYELQLSRYVPIDNLYEDIVMVLRDVRNMED
.AR..LK..E...I..L.SAI.EVKAGGDEYSLLVNL.RLYELQLS.YVPID.LYEDIVMVLRDVRNMED
RetrocopyVARNNLKEVEDLVIDKLESAIREVKAGGDEYSLLVNLRRLYELQLSKYVPIDKLYEDIVMVLRDVRNMED
ParentalEVVGLLLQNMHIHLAWSLQSVIDGESVSDASLTSLRSKRDTLLQELEYYVNLATD-SNEVDKIGSELAGR
EVVGLLLQN....LAWSL..V.DGESVSDASL..L.SKRDTLLQELEY.VNL.TD.SNE.DK.GSEL.GR
RetrocopyEVVGLLLQNLYFDLAWSLKFVLDGESVSDASLKTLLSKRDTLLQELEYFVNLVTDESNEGDKSGSELGGR
ParentalVCAVLAEAWCLFRMANFSKTGLEGLGYQPNAHVLQKFWELCQQQLTVPDEVEDDDVNKDVTTEYSEETDR
VC..LAE.WCLFRM.NFSKTGLE.LGY.PN..VLQKF..LCQQQL.....V.D.....DV.....EET.R
RetrocopyVCTMLAETWCLFRMTNFSKTGLERLGYRPNSYVLQKFQKLCQQQLN----VSDEVEDDDVN---KEETNR
ParentalCAVLIAACKLISSDVVPKDYLAPEIISHFVMHGARVAEIVKHLITFLKKGEDDLAAIFLEALKKAYHRHI
CAVL..ACKLI..DVVPKDYLAPEIISHFVMHG..VAEIVK.LITFLKK..DDLA.IFLEALKKAYHRH.
RetrocopyCAVLVGACKLIYTDVVPKDYLAPEIISHFVMHGTGVAEIVKNLITFLKKRKDDLADIFLEALKKAYHRHT
ParentalVDNSGNDNISSENSFSECKNLAVQLSGTFIGAARNKYKSDILKLVKDGIEYAFVDAPKQLSFLEAAVVHF
VDNSGND..SSEN.FSECKNLAVQLS.T.IG.ARNKYKS.ILKLVKDGIEYAF.DAPK.LSFLEAAVVHF
RetrocopyVDNSGNDDMSSENLFSECKNLAVQLSRTYIGGARNKYKSEILKLVKDGIEYAFEDAPKHLSFLEAAVVHF
ParentalVSKLPASDVLEIKKDVEKRTENVNKDENPSGWRPYCTFVEVLREKCVKNEVFQDEKEGVSVKRRGRPR
..KLPASDVLEIKKDVEKRTENVNKDENP.GWRPYCTFVEVL.EK..KNEVFQ..KEGVSVKR.GRP.
RetrocopyAAKLPASDVLEIKKDVEKRTENVNKDENPNGWRPYCTFVEVLQEKGAKNEVFQIIKEGVSVKRQGRPQ

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Medicago truncatula was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Medicago truncatula was not studied using ChIP-Seq data.

EST - click to see more details

Medicago truncatula was not studied using EST data.

TSS - click to see more details

Medicago truncatula was not studied using FANTOM5 data.

Lab - click to see more details

retro_mtru_9 was not experimentally validated.

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.
Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Medicago truncatula MTR_7g107440 1 retrocopy
retro_mtru_9 ,


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