RetrogeneDB ID:

retro_oglu_26

Retrocopy
location
Organism:Oryza glumaepatula
Coordinates:8:104034..104751(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:OGLUM08G00140
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:OGLUM02G26140
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_oglu_26
ATGGCGATGAAGGCGGTGATCAAGGGCGGCGATGGCGGAGGCGGGTGCATGGTGGTGGTGGCGCACGTGCTAGCGGTGGC
GGCGACGGCGATGGTGTTGGTGTGGTGCGTTCACTTCCGCGGCGGACTCGCCCTGCGCTCCCACAACAAGCAGCTCATCT
TCAACACCCACCCGGTGCTCATGGTGCTTGGCCTCGTCGTCCTCGCCGCCGAGGCCATCCTCTCCTACCGCTCCCTCTCC
ATCATCGTCAGCAGCAGGGACGCCAGAAAGAAGGTGCACCTGGGGCTGCACGCCGTGGGGCTCGCCCTCGGCGGCGTCGG
CATCTACGCGGTGTTCAAGTACCACGCCGAGGCCGACATCCCCAACCTCTACTCCCTCCACTCCTGGATCGGCATCGCCA
CCATCTCCCTCTACGCGCTCCACTGGCTCCTCGCCTTCCTCACCTTCTTCTTCCCCGGCGCCTCCCACGACACCAGGCGC
TCCGCCGTCCCGTGGCACGCGCTCCTCGGCCTCCTCGTCTTCGCGCTCGCCGTCGGCAACGCCCAGCTCGGCTTCCTCGA
GAAGCTCACCTTCCTGCAGGCCCCGCCGCTGCGCCTGTCCAGGTACGGGGCGGAGGCGCTACTCGTCAACTTCACGGCGC
TGGTGGTCCTCCTCCTCGGCGTCGCCGTCGTCCTCGCCACCGCCAACGTCGACTCCACTAAATATACCGCCATGTAA

ORF - retro_oglu_26 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 56.67 %
Parental protein coverage: 88.03 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalVAHALAVTAAAMVLVWGIHFRGGLAFEATNKNLIFNVHPVLMLIGYIILGSEAIMVYKVLP--TWKHDTT
VAH.LAV.A.AMVLVW..HFRGGLA....NK.LIFN.HPVLM..G...L..EAI..Y..L.......D..
RetrocopyVAHVLAVAATAMVLVWCVHFRGGLALRSHNKQLIFNTHPVLMVLGLVVLAAEAILSYRSLSIIVSSRDAR
ParentalKLIHLILHAIALVFGAVGIYCAFKFHNESGITNLYSLHSWLGIGTICLYGIQWIFGFVAFFFPRASPSVR
K..HL.LHA..L..G.VGIY..FK.H.E..I.NLYSLHSW.GI.TI.LY...W...F..FFFP.AS...R
RetrocopyKKVHLGLHAVGLALGGVGIYAVFKYHAEADIPNLYSLHSWIGIATISLYALHWLLAFLTFFFPGASHDTR
ParentalKGVLPWHILFGLFVYILALATAELGFLEKLTFLQSS--GLDKYGAEAFLVNFTALIVVLFGASVVVAAVS
....PWH.L.GL.V..LA...A.LGFLEKLTFLQ.....L..YGAEA.LVNFTAL.V.L.G..VV.A...
RetrocopyRSAVPWHALLGLLVFALAVGNAQLGFLEKLTFLQAPPLRLSRYGAEALLVNFTALVVLLLGVAVVLATAN

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_26 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 indicaBGIOSGA0059561 retrocopy
Oryza brachyantha OB02G329801 retrocopy
Oryza barthii OBART02G256101 retrocopy
Oryza glumaepatula OGLUM02G26140 1 retrocopy
retro_oglu_26 ,
Oryza nivara ONIVA02G280501 retrocopy
Oryza punctata OPUNC02G234601 retrocopy
Oryza rufipogon ORUFI02G270201 retrocopy
Physcomitrella patens PP1S194_18V61 retrocopy



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