RetrogeneDB ID:

retro_oglu_9

Retrocopy
location
Organism:Oryza glumaepatula
Coordinates:1:46402986..46404120(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:OGLUM01G50140
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:OGLUM05G01170
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_oglu_9
ATGGTGCAGCGCACTTCATCCGATTCGGCGGCGTCGGCTGAGGCCATGGTCATGGACCTGAGTCCCAAGCGTCCCGCCAA
GTCCTACGGCGGCTCAGGCGGCTCGTACTTTGATTGGTCCCCCTCCGAGCTGCCCATGCTCCGCGCCGCCTCCATCGGCG
CCGCCAAACTCTCGCTTGCCGCCGGAGGCCTCGCCCTCCCCTTCTACTCCGATTCGGCTAAGGTGGCCTACGTCCTCCAG
GGCAAGGGCACCTGCGCCGTTCTCCTCCCCGAGACCCCCTCCGAGAAGATCCTACCCATCAAAGAGGGCGACGCGCTCGC
CCTTCCATTCGGCGTTGTCACCTGGTGGCACAACCTGCACGCCGCCACCACCGAACTCGTCGTCCTCTTCCTCGGGGACA
CATCCAAGGGCCACACCGCCGGCCGCTTCACCAACATGCAGCTCACCGGCTCCACCGGCATCTTCACCGGCTTCTCCACC
GAGTTCGTCGCCCGCGCCTGCGACCTCCCGCAGGACGCCGCTGCCTCCCTCGTCTCCACCCAGCCCGGCGCCGGCATCGT
GAAGCTCAAGGATGGCTTCAGGATGCCCGAGGGTTGCGACAAGGACAGGGAGGGCATGGTGCTCAACTGCTTGGAGGCGC
CGCTGGACGTGGACATCAAGAACGGGGGCCGCGTGGTGGTGCTGAACACGCAGAACCTGCCGCTGGTGAAGGAGGTGGGG
CTGGGCGCCGACCTGGTGAGGATCGACGGCCACTCCATGTGCTCGCCGGGGTTCTCGTGCGACTCGGCGTACCAGGTGAC
GTACATCGTGCGGGGCAGCGGGCGCGTGCAGGTGGTGGGCATCGACGGGACGCGCGTGCTGGAGACCCGCGCCGAGGGTG
GCTGCCTCTTCATCGTCCCCAGGTTCTTCGTCGTCTCCAAGATCGCCGACGACACCGGCATGGAGTGGTTCTCCATCATC
ACCACTCCCAACCCCATCTTCTCCCACCTCGCCGGGAGGACCTCCGTCTGGAAGGCCATCTCCCCCGCCGTGCTCCAGGC
CTCCTTCAACACCACCCCGGAGATGGAGAACCTCTTCCGCTCCAAGAGGCTCGACTCCGAGATCTTCTTCGCCCCCAATT
CGAATTCGATTTGA

ORF - retro_oglu_9 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 76.69 %
Parental protein coverage: 99.16 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalVDLTPRQARKAYGGDGGTYYEWSPADLPMLELANIGGAKLSLNAGGLALPSFSDSGKVAYVLQGKGTCGI
.DL.P....K.YGG.GG.Y..WSP..LPML..A.IG.AKLSL.AGGLALP..SDS.KVAYVLQGKGTC..
RetrocopyMDLSPKRPAKSYGGSGGSYFDWSPSELPMLRAASIGAAKLSLAAGGLALPFYSDSAKVAYVLQGKGTCAV
ParentalVLPEASKEKVIAVKEGDSLALPFGVVTWWHNLPESPVELVILFLGDTSKAHKAGQFTNMQLTGATGIFTG
.LPE...EK....KEGD.LALPFGVVTWWHNL.....ELV.LFLGDTSK.H.AG.FTNMQLTG.TGIFTG
RetrocopyLLPETPSEKILPIKEGDALALPFGVVTWWHNLHAATTELVVLFLGDTSKGHTAGRFTNMQLTGSTGIFTG
ParentalFSTEFVGRAWDLAESDAVKLVSSQPASGIVKIKSGQKLPEPSAADREGMALNCLEAPLDVDIKNGGRVVV
FSTEFV.RA.DL....A..LVS.QP..GIVK.K.G...PE....DREGM.LNCLEAPLDVDIKNGGRVVV
RetrocopyFSTEFVARACDLPQDAAASLVSTQPGAGIVKLKDGFRMPEGCDKDREGMVLNCLEAPLDVDIKNGGRVVV
ParentalLNTANLPMVKEVGLGADLVRIDGHSMCSPGFSCDSAYQVTYFIRGSGRVQVVGADGKRVLDTHVEGGNLF
LNT.NLP.VKEVGLGADLVRIDGHSMCSPGFSCDSAYQVTY..RGSGRVQVVG.DG.RVL.T..EGG.LF
RetrocopyLNTQNLPLVKEVGLGADLVRIDGHSMCSPGFSCDSAYQVTYIVRGSGRVQVVGIDGTRVLETRAEGGCLF
ParentalIVPRFCVVSKIADASGLQWFSIITTPNPIFSHLAGKTSVWKAISPEVLEASFNATPEMEKLFRSKRLDSE
IVPRF.VVSKIAD..G..WFSIITTPNPIFSHLAG.TSVWKAISP.VL.ASFN.TPEME.LFRSKRLDSE
RetrocopyIVPRFFVVSKIADDTGMEWFSIITTPNPIFSHLAGRTSVWKAISPAVLQASFNTTPEMENLFRSKRLDSE
ParentalIFFAPN
IFFAPN
RetrocopyIFFAPN

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






Oryza glumaepatula was not studied using RNA-Seq expression data.
Oryza glumaepatula was not studied using ChIP-Seq data.
Oryza glumaepatula was not studied using EST data.
Oryza glumaepatula was not studied using FANTOM5 data.
retro_oglu_9 was not experimentally validated.

Retrocopy orthology:
Oryza glumaepatula 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 8 parental genes, and 8 retrocopies.

Species Parental gene accession Retrocopies number
Oryza sativa indicaBGIOSGA0189311 retrocopy
Oryza brachyantha OB05G111401 retrocopy
Oryza glumaepatula OGLUM05G01170 1 retrocopy
retro_oglu_9 ,
Oryza nivara ONIVA05G011901 retrocopy
Oryza punctata OPUNC05G010501 retrocopy
Oryza glaberrima ORGLA05G00120001 retrocopy
Oryza rufipogon ORUFI05G011801 retrocopy
Oryza sativa japonicaOS05G01160001 retrocopy



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