RetrogeneDB ID:

retro_atau_33

Retrocopy
location
Organism:Tausch goatgrass (Aegilops tauschii)
Coordinates:Scaffold16374:251739..253494(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:F775_17053
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_atau_33
TTGGCGTGGCAGGACTTGGAGCAGCTGTCTGCGGAGCTGCGGGCGGAGATCGTGCACACGGTGTCCAAGACCGGCGGCCA
CCTGAGCGCGAGCCTGGGGGTGGTGGAGCTCTCGGTGGCGCTCCACCACGTGTTCGACACGCCAGAGGACAAGATCATCT
GGGACGTCGGCCACCAGGCCTACCCGCACAAGATCCTCACGGGCCGCCGGTCGCGGATGCACACCATCCGCAAGACCTCC
GGCCTCGCCGGGTTCCCCAAGCGCGATGAGAGCGCGCACGACGCATTCGGCGTCGGGCACAGCTCCACGAGCATCTCCGC
GGCGCTCGGTATGGCCGTTGCCCGCGACCTCCAGGGCAAGAAGAACCACGTCATCTCCGTGATCGGAGACGGCGCCATGA
CTGCCGGACAGGCCTACGAGGCCATGAACAACTCCGGCTTCCTCGACTCCAACATGATCGTCGTCCTCAATGATAACAAG
CAGGTCTCTCTCCCGACCGCCACCCTTGATGGTCCCTCCAAGCCCGTGGGCGCACTCAGCAAGGCGCTCACCAAGCTCCA
GTCCAGCACCAAGTTCCGGCGGCTTCGGGAGGCCGCCAAGACCATCACCAAGCAGATCGGCGGCTCGACGCACGAGGTGG
CCGCCAAGGTTGATGAGTACGCGCGTGGCATGATCAGTGCCTCGGGATCAACGCTCTTCGAGGAGCTCGGGCTCTACTAC
ATCGGCCCTGTCGACGGTCACAGCCTCGAGGACCTCGTCACCATCTTCGAGAAGGTCAAGTCCATGCCGGCGCCCGGGCC
CGTGCTCATCCACATCGTGACGGAGAAAGGGAAGGGGTACCCACCGGCGGAGGCCGCCGCCGACAAGATGCACGGCGTGG
TCAAGTTTGACCCGACCACGGGGAAGCAGTTCAAGACCAAGAGCCCCACGCTGTCGTACACGCAGTACTTCGCTGAGTCG
CTAATTCGGGAGGCGGAGGGGGACGACAAGGTGGTGGCGATCCATGCAGCCATGGGAGGCGGCACGGGGCTTAACTACTT
CCAGAAGCGGTTCCCGGAACGGTGCTTCGACGTGGGCATTGCGGAGCAGCACGCCGTGACTTTCGCTGCGGGGCTCGCCG
CCGAGGGGATGAAACCGTTCTGTGCCATCTACTCGTCGTTCCTGCAACGAGGGTACGACCAGGTGGTGCACGACGTGGAC
CTGCAGCGGCTGCCGGTGCGCTTCGCCATGGACAGGGCGGGACTCGTCGGCGCAGACGGCCCTACCCACTGCGGCGCGTT
TGACGTGACATACATGGCATGCCTGCCCAACATGGTGGTCATGGCACCTGCCGACGAGGCGGAGCTCATGCACATGGTCG
CCACCGCCAACGCCATCGACGATCGGCCAAGCTGTTTCCGCTTCCCCCGCGGCAACGGCATTGGCGCCGTGCTTCCTCTC
AACAACAGAGGCACCCCCATTCAGGTAGGCAAGGGGAGGGTACTCGTCAGCGGCAACAGGGTAGCCCTGCTAGGATATGG
CACCATGGTGCAGGCCTGCCTGAAGGCGGCGGAGGCGCTGAAGGAGCATGACTTGTTCATCACCGTCGTGGACGCCCGCT
TCTGCAAGCCGCTGGACACGGAGCTCATCCGTGAGCTCGCTGCCGAGCATGAGATCCTCATCACCGCCGAGGAGGGCTCC
ATCGGAGGCTTCGGCTCCCACGTGGCGCACTACCTCAGCCTCAGCGGCATCCTCGACGGCCCGCTCAAGGTAAGA

ORF - retro_atau_33 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.87 %
Parental protein coverage: 82.16 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLSLKELQQLSDELRSDVIFHVSKTGGHLGSSLGVVELTVALHYVFNTPQDKLLWDVGHQSYPHKILTGRR
L....L.QLS.ELR......VSKTGGHL..SLGVVEL.VALH.VF.TP.DK..WDVGHQ.YPHKILTGRR
RetrocopyLAWQDLEQLSAELRAEIVHTVSKTGGHLSASLGVVELSVALHHVFDTPEDKIIWDVGHQAYPHKILTGRR
ParentalDKMPTMRQTNGLSGFVKRSESEYDSFGTGHSSTTISAALGMAVGRDLKGAKNNVVAVIGDGAMTAGQAYE
..M.T.R.T.GL.GF.KR.ES..D.FG.GHSST.ISAALGMAV.RDL.G.KN.V..VIGDGAMTAGQAYE
RetrocopySRMHTIRKTSGLAGFPKRDESAHDAFGVGHSSTSISAALGMAVARDLQGKKNHVISVIGDGAMTAGQAYE
ParentalAMNNAGYLDSDMIVILNDNKQVSLPTATLDGPAPPVGALSGALSKLQSSRPLRELREVAKGVTKQIGGSV
AMNN.G.LDS.MIV.LNDNKQVSLPTATLDGP..PVGALS.AL.KLQSS...R.LRE.AK..TKQIGGS.
RetrocopyAMNNSGFLDSNMIVVLNDNKQVSLPTATLDGPSKPVGALSKALTKLQSSTKFRRLREAAKTITKQIGGST
ParentalHEIAAKVDEYARGMISGSGSSLFEELGLYYIGPVDGHNIDDLITILREVKGTKTTGPVLIHVITEKGRGY
HE.AAKVDEYARGMIS.SGS.LFEELGLYYIGPVDGH...DL.TI...VK.....GPVLIH..TEKG.GY
RetrocopyHEVAAKVDEYARGMISASGSTLFEELGLYYIGPVDGHSLEDLVTIFEKVKSMPAPGPVLIHIVTEKGKGY
ParentalPYAERASDKYHGVAKFDPATGKQFKVPAKTLSYTNYFAEALIAEAEQDSKIVAIHAAMGGGTGLNYFLRR
P.AE.A.DK.HGV.KFDP.TGKQFK....TLSYT.YFAE.LI.EAE.D.K.VAIHAAMGGGTGLNYF..R
RetrocopyPPAEAAADKMHGVVKFDPTTGKQFKTKSPTLSYTQYFAESLIREAEGDDKVVAIHAAMGGGTGLNYFQKR
ParentalFPNRCFDVGIAEQHAVTFAAGLACEGLKPFCAIYSSFLQRGYDQVVHDVDLQKLPVRFAMDRAGLVGADG
FP.RCFDVGIAEQHAVTFAAGLA.EG.KPFCAIYSSFLQRGYDQVVHDVDLQ.LPVRFAMDRAGLVGADG
RetrocopyFPERCFDVGIAEQHAVTFAAGLAAEGMKPFCAIYSSFLQRGYDQVVHDVDLQRLPVRFAMDRAGLVGADG
ParentalPTHCGAFDVAFMACLPNMVVMAPSDEAELLNMVATAAAIDDRPSCFRYPRGNGIGVPLPENYKGTAIEVG
PTHCGAFDV..MACLPNMVVMAP.DEAEL..MVATA.AIDDRPSCFR.PRGNGIG..LP.N..GT.I.VG
RetrocopyPTHCGAFDVTYMACLPNMVVMAPADEAELMHMVATANAIDDRPSCFRFPRGNGIGAVLPLNNRGTPIQVG
ParentalKGRIMIEGERVALLGYGSAVQYCMAASSIVAQHGLRVTVADARFCKPLDHALIRSLAKSHEVIITVEEGS
KGR....G.RVALLGYG..VQ.C..A......H.L..TV.DARFCKPLD..LIR.LA..HE..IT.EEGS
RetrocopyKGRVLVSGNRVALLGYGTMVQACLKAAEALKEHDLFITVVDARFCKPLDTELIRELAAEHEILITAEEGS
ParentalIGGFGSHVAQFMALDGLLDGKLKWR
IGGFGSHVA....L.G.LDG.LK.R
RetrocopyIGGFGSHVAHYLSLSGILDGPLKVR

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






RNA-Seq - click to see more details

Aegilops tauschii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Aegilops tauschii was not studied using ChIP-Seq data.

EST - click to see more details

Aegilops tauschii was not studied using EST data.

TSS - click to see more details

Aegilops tauschii was not studied using FANTOM5 data.

Lab - click to see more details

retro_atau_33 was not experimentally validated.

Retrocopy orthology:
Aegilops tauschii 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
Aegilops tauschii F775_17053 1 retrocopy
retro_atau_33 ,


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