RetrogeneDB - Retrocopy retro_mtru

                        
>retro_mtru_14
ATGGAACCGCAGACTGGCCCTTCGGCCTTCGCCACTTCTTCCATCCACAAGCGCAAACACCTGTCCGAGGATCACTCGCC

TCCATTCCACCCTTCTTGCGACTCTTCGATGCACAACTTCACCGGTTCTGTCAACAGTTTGGCCACTACTTCCGGTTCTG

TCCCCGACTTTGTGGTTAAGGACGAAGCCGCAACAAATATATTCACTGAAAACTTGCAGATAAGAGGTGGTTACAGTGCC

AGGGAAGAGAGTCTTAAGAAAGAGGAAGAATCTGGATTACTCAAATTTGTATGCGTGTGCAATGATGGTGTTGATGACCA

TATGGTTTCGTTGATAGCATTAAAGAATATATTTGCCAGACAACTTCCCAATATGCCAAAGGAGTACATTGTCCGACTTA

TTATGGATAGGAACCATAAGTCTATAATGGTTATAAGGGAGCCTAATCGCGTTGTTGGAGGCGTTACATATCGTCCATAT

GCAAATCAGAGGTTCGCTGAGATAGCCTTTTGTGCAATTAGTGATGATCGACAAGTAAAAGGTTATGGTACCAGATTGAT

GAATCACTTGAAACAGTATGCACGTGATGTAGATGGACTGACACATTTTCTCACGTATGCTGATAATAATGCTATTGGCT

ATTTCATCAAACAAGGTTTTACAAAAGAGATTCACTTGGAGAAAGATCGATGGGAAGGTTATATAAAGGATTATGATGGG

GGAACTCTCATGGAATGTAAGCTTGATCCAAAGATTCCTTATACTGATTTAACAACTATGATCCGTCGGCAAAGACAGGC

ACTATTTGAAAAGATTAGAGAACTATCAAACTGTCACAATATTGTTTATGCTGGAATTGATTTTCAGAAGAGATCAGAAG

ATGGAGTTATTCCTAATAGAATTGTTGATGACATCCCTGGTTTGAAAGAGGCTAAATGGACTCCTGATATGTACGGTCAC

TCGCGGTTTAGAGCTTTAGATGGTTCTACTGACCATGCTACAAACCTAAAACATTTAACTGAGTTTATGCGGTCAATTCT

AAAGGAAATGCATGATCACCCTGATGCTTGGCCATTTAAGGAGCCTGTTGATGCACTGAGTGTTCCTGGTTATTATGAAA

TCATCAAGAATCCGATGGATCTAAAGACAATGAGTGAGAGGCTGGAGTCAGAACAATATTACGTCACATTTGAGATGTTT

CTCGCGGATGCCAGAAGAATGTTTGAGAATGCACGAACCTATAATCCTCCAAAAACCATATATTACAAATGTGCTACAAG

ACTAGAAGCACACTTTCAAAGCAAAGTGACAACACTCCTACAGTCTGGCTTCAAAATTCAGTAG

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:

                                ParentalVTGAGAGGGSVPGIVVKEDA-TKIFTENLQTSGAYSAREESLKKEEETGKLKFTCLSNDGVDQHMVWLIG
V.......GSVP..VVK..A.T.IFTENLQ..G.YSAREESLKKEEE.G.LKF.C..NDGVD.HMV.LI.
RetrocopyVNSLATTSGSVPDFVVKDEAATNIFTENLQIRGGYSAREESLKKEEESGLLKFVCVCNDGVDDHMVSLIA
ParentalLKNIFARQLPNMPKEYIVRLVMDRSHKSVMVIRR-NHVVGGITYRPYASQRFGEIAFCAITADEQVKGYG
LKNIFARQLPNMPKEYIVRL.MDR.HKS.MVIR..N.VVGG.TYRPYA.QRF.EIAFCAI..D.QVKGYG
RetrocopyLKNIFARQLPNMPKEYIVRLIMDRNHKSIMVIREPNRVVGGVTYRPYANQRFAEIAFCAISDDRQVKGYG
ParentalTRLMNHLKQYARDVDGLTHFLTYADNNAVGYFIKQGFTKEIHLEKDRWHGYIKDYDGGILMECKIDPKLP
TRLMNHLKQYARDVDGLTHFLTYADNNA.GYFIKQGFTKEIHLEKDRW.GYIKDYDGG.LMECK.DPK.P
RetrocopyTRLMNHLKQYARDVDGLTHFLTYADNNAIGYFIKQGFTKEIHLEKDRWEGYIKDYDGGTLMECKLDPKIP
ParentalYTDLSTMIRRQRQAIDEKIRELSNC-QVVHEGLNFYK--NEAGIPMKIIKDIPGLGGDVGWSPDQWGHSR
YTDL.TMIRRQRQA..EKIRELSNC...V..G..F.K......IP..I..DIPGL.....W.PD..GHSR
RetrocopyYTDLTTMIRRQRQALFEKIRELSNCHNIVYAGIDFQKRSEDGVIPNRIVDDIPGL-KEAKWTPDMYGHSR
ParentalFRTLGGSTDIATNLKHLTAFMRTLLKTMHDHADAWPFKEPVDELDVPDYYQIIKDPIDLKTMSKRVESEL
FR.L.GSTD.ATNLKHLT.FMR..LK.MHDH.DAWPFKEPVD.L.VP.YY.IIK.P.DLKTMS.R.ESE.
RetrocopyFRALDGSTDHATNLKHLTEFMRSILKEMHDHPDAWPFKEPVDALSVPGYYEIIKNPMDLKTMSERLESEQ
ParentalYYVTFEMFVEDVKRMFSNARTYNSPETIYYKCATRLEAHFQSKVHSILQSGNKVQ
YYVTFEMF..D..RMF.NARTYN.P.TIYYKCATRLEAHFQSKV...LQSG.K.Q
RetrocopyYYVTFEMFLADARRMFENARTYNPPKTIYYKCATRLEAHFQSKVTTLLQSGFKIQ

                            

                            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_14 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_7g096040	1 retrocopy	retro_mtru_14 ,

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

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

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

RetrogeneDB ID:

retro_mtru_14