RetrogeneDB ID:

retro_hvul_15

Retrocopy
location
Organism:Barley (Hordeum vulgare)
Coordinates:2:438791530..438793471(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:MLOC_62643
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:MLOC_11567
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_hvul_15
ATGGACGGATGGATGTTGCATGCAGACCAGATCGTGTGGATTACAGTGGCCATCCTGGTGGCCCTCTTCTCGGTGCAGCG
GTTCGGAACAGACAAGGTGGGCTACTTCTTCGCGCCGGTGGTCATCCTCTGGCTGCTCCTCATCGGCGGCGTCGGCGTGT
ACAACCTCGTGAAGCACGACATCGGCGTCCTCCGGGCCTTCAACCCCAAGTACATCGCCGACTACTTCCGGCGCAACAAG
AAGGACGCGTGGATCTCCCTCGGCGGCATCCTCCTCTGCTTCACCGGCACCGAGGCTCTCTTCGCCGACCTTGGCTACTT
CAGCATCCGCTCCATCCAGCTCAGCTTCGGCTTCGGCCTCGTCCCTTCTGTGCTCCTCGCCTACGCCGGCCAGGCCGCCT
TCCTCCGCAAGTACCCGGAGGAGGTGGCCAACACGTTCTACAGGTCCACCCCGACGGTCCTCTTCTGGCCCACCTTCGTC
CTCGCCATCGCCGCCTCCATCATCGGCAGCCAGGCCATGATCTCCTGCGCCTTCGCCACCATCTCCCACTCGCAGGCGCT
GGGATGCTTCCCGCGCGTCAAGATCCTGCACACCTCCAAGCAGTACCAGGGCCAGCTCTACATCCCGGAGGTCAACTTCC
TGCTGGGCTTCGCCGCTTGCGTCGTCACCGTGGCGTTCAAGACCACTGTGGTCATCGGCGAGGCGCACGGCATCTGTGTC
GTCCTCGTCATGCTCATCACCACGCTGCTCCTCACCGTGGTGATGCTTCTGGTGTGGAGGATGAACGCGTGGTGCGTGGC
GCTCTTCTTCTTGGTCTTCATGGCGTCCGAGTCCGTCTACCTCTCCTCGGTGCTCTACAAGTTCCTGCACGGAGGGTACA
TCCCCGTGGTCATCTCGGCGGTGCTCATGGCCGTCATGATCGTGTGGCACTACGTGCACGTGATGCGCTACAAGTACGAG
CTGGAGCGCACGGTGTCGCCGGACAAGGTGCGGGAGATGCTGGACGGCCGCGACCTGCGCAAGGTGCCCGGCGTGGGGCT
CTTCTACACGGACCTCGTGCAGGGGATCCCGCCGGTGTTCCCGCACCTGATCGAGAAGATCCCGTCCATCCACGCCGTGC
TCCTCTTCGTGTCCGTGAAGCACCTCCCCGTCCCGCACGTGGACATGTCGGAGCGGTTCCTGTTCCGGCAGGTGGAGCCG
AGGGAGCACAAGCTGTACCGGTGCGTGGCGAGGTACGGGTACCGTGACCCGCTGGAGGAGGCCAAGGACTTCGCGACCAA
CCTGGTGGAGCGCCTCCAGTACTACATCCGCGACGTGAACCTGTACGGCGTGGACGTGGACGCCAAGGCCGGCAAGGTGA
GCTACCCGAGCTCGCGCTGCGACAGCATGGCCAGATCAACCCGGCGCAGCAGCATGACGATGACGATGCAGCAGCACTAC
TCGTCGGCGTCCTACACGGAGAGCCTTGCGCTGGCGAGGGCAAGGTCGACGTCGTCGGGGGCCACCGGGCGCATGAACAT
GAACGGCATGATCATGATGCCGTCGGCGTCCTACACGGAGAGGGAGAGGCAGGGGCGGTCCATCTACGCGGAGGAGATGA
TGACGCCGGCCGAGTCCTTCTCGGAGCTGGCAATGCAGGTGGTGCCGTCGGGGCGGTACGCGGCGAGCAGCCAGCAGCTT
TTCCAGGCGGCCAAGATGAGCCTGGAGGAGATGGCCAAGATCGAGGAGGAGCAGAGGTACATCGAGAGGGAGATGGAGAA
GGGGGTGGTGTACATCATGGGGGAGAACGAGGTGGTGGCGCGGCCTCACTCCTCGCTGCTCAAGAAAATCATCGTCAATT
ATGTATACGCCTTCCTGAGGAAGAACTGCAGGCAAGGGGATAAGATGCTCGCCATCCCAAGAAGCCAACTGCTCAAGGTC
GGAATGTCTTACGAGATCTAG

ORF - retro_hvul_15 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69. %
Parental protein coverage: 56.88 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLTTDQIVWITVGILILFFAVQHLGTDKIGYTFAPLVVVWLLLIAGIGLYNLIKYDIGTLRAFNPKYIFDY
L..DQIVWITV.IL...F.VQ..GTDK.GY.FAP.V..WLLLI.G.G.YNL.K.DIG.LRAFNPKYI.DY
RetrocopyLHADQIVWITVAILVALFSVQRFGTDKVGYFFAPVVILWLLLIGGVGVYNLVKHDIGVLRAFNPKYIADY
ParentalFRRNKKKGWVSLGEILLCFTGTEALFADLGYFSIKSIQLSFSFGLLPSVLLTYIGQAAYLRKHLDMQISN
FRRNKK..W.SLG.ILLCFTGTEALFADLGYFSI.SIQLSF.FGL.PSVLL.Y.GQAA.LRK.......N
RetrocopyFRRNKKDAWISLGGILLCFTGTEALFADLGYFSIRSIQLSFGFGLVPSVLLAYAGQAAFLRKYPE-EVAN
ParentalAFFNSIPSTLFWPTFVLALLASVIGSQAMVSCAFATMSHLQTLSCFPRVKILHTSRRYSGQLYIPEVNFF
.F..S.P..LFWPTFVLA..AS.IGSQAM.SCAFAT.SH.Q.L.CFPRVKILHTS..Y.GQLYIPEVNF.
RetrocopyTFYRSTPTVLFWPTFVLAIAASIIGSQAMISCAFATISHSQALGCFPRVKILHTSKQYQGQLYIPEVNFL
ParentalLCVASCIVTLSFRTTGFIAKAHEICVALVMVITTLLMTIVMLLVWKVNIWWIAAFFAVFMSTETVYLSAV
L..A.C.VT..F.TT..I..AH.ICV.LVM.ITTLL.T.VMLLVW..N.W..A.FF.VFM..E.VYLS.V
RetrocopyLGFAACVVTVAFKTTVVIGEAHGICVVLVMLITTLLLTVVMLLVWRMNAWCVALFFLVFMASESVYLSSV
ParentalLYKFTQGPYFPLAMSAVLMVIMIVWHYVHVKRYKYELQHTVSPDEVRHLLERHDLKRVPGLGLFYTELVQ
LYKF..G.Y.P...SAVLM..MIVWHYVHV.RYKYEL..TVSPD.VR..L...DL..VPG.GLFYT.LVQ
RetrocopyLYKFLHGGYIPVVISAVLMAVMIVWHYVHVMRYKYELERTVSPDKVREMLDGRDLRKVPGVGLFYTDLVQ
ParentalGIPPIFPHLIEKIPTVHSVIVFISVKHLPIPHVDVQERFLFRQVEPKESMVFRCVARYGYRDTLEMAGDF
GIPP.FPHLIEKIP..H.V..F.SVKHLP.PHVD..ERFLFRQVEP.E....RCVARYGYRD.LE.A.DF
RetrocopyGIPPVFPHLIEKIPSIHAVLLFVSVKHLPVPHVDMSERFLFRQVEPREHKLYRCVARYGYRDPLEEAKDF
ParentalVATLVEYLQYYVRDLSLY---CTAEPLRTSYPSIRIDS
...LVE.LQYY.RD..LY.....A.....SYPS.R.DS
RetrocopyATNLVERLQYYIRDVNLYGVDVDAKAGKVSYPSSRCDS

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






RNA-Seq - click to see more details

Hordeum vulgare was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Hordeum vulgare was not studied using ChIP-Seq data.

EST - click to see more details

Hordeum vulgare was not studied using EST data.

TSS - click to see more details

Hordeum vulgare was not studied using FANTOM5 data.

Lab - click to see more details

retro_hvul_15 was not experimentally validated.

Retrocopy orthology:
Hordeum vulgare 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
Hordeum vulgare MLOC_11567 1 retrocopy
retro_hvul_15 ,


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