RetrogeneDB ID:

retro_omer_23

Retrocopy
location
Organism:Oryza meridionalis
Coordinates:6:24108556..24110119(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:OMERI06G20730
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:OMERI02G08750
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_omer_23
ATGGAGATCTCGGCGGCGGCGGCGGCGCCCAATGGCGGCGCGGCGGCGGCGGAGCAGCAGCAGCGGCGTCGGCTGCCGGA
CTTCCAGCAGTCGGTGAGGCTCAAGTACGTGAAGCTGGGGTACCACTACCTCATCTCCCACGGCATGTACCTGCTGCTGT
CGCCGCTGATGGCGCTGGTGGCCGTGCAGCTCTCCACCGTGTCCCCGGGCGACATCGCCGACCTGTGGGAGCAGCTCCGC
TTCAACCTCCTCTCCGTCGTCGCCTGCTCCACCCTCCTCGTCTTCCTCTCCACCCTCTACTTCCTCACCCGCCCCCGCCC
CGTCTACCTCCTCGACTTCGCCTGCTACAAGCCCGACCCCCAGCGCAAGTGCACCCGCGAGACCTTCATGCGCTGCTCCA
GCCTCACCGGCTCCTTCACCGACGCCAACCTCGACTTCCAGCGCAAGATCCTCGAGCGCTCGGGCCTCGGCGAGGACACC
TACCTCCCTCCCGCCGTGCTGCGCGTCCCGCCCAACCCCTGCATGGACGAGGCCCGCAAGGAGGCCCGCGCCGTCATGTT
CGGCGCCATTGACCAGCTTCTTGAGAAGACGGGTGTGAAGCCTAAGGACATTGGTGTGGTTGTCGTCAATTGCAGCTTGT
TCAACCCGACGCCGTCGCTGTCCGCCATGGTTGTGAACCACTACAAGCTGAGGGGGAATGTCATCAGCTACAACCTCGGC
GGGATGGGGTGCAGCGCCGGCTTGCTGTCCGTCGATCTCGCCAAGGACTTGCTGCAGGTGCACCCCAACTCGTACGCGCT
GGTGGTCAGCATGGAGAACATCACGCTCAATTGGTACTTTGGCAACAACCGGTCGATGCTCGTGTCGAATTGCCTGTTCC
GGATGGGCGGCGCCGCCATCCTGCTGTCGAACAGGCGGTCCGACCGCCGCAGGTCCAAGTATGAGCTTGTGCACACCGTG
CGCACGCACAAGGGCGCCAACGACAAGTGCTTTGGCTGTGTCACACAGGAGGAAGACGAGATCGGCAAGATCGGCGTGTC
GCTCTCCAAGGACCTGATGGCGGTGGCCGGAGACGCGCTGAAGACGAACATCACCACCCTCGGGCCGCTCGTGCTCCCGT
TGTCGGAGCAGCTGCTCTTCATGGCCACATTGGTTGCCAAGAAGGTCCTCAAGATGAAGATCAAGCCATACATCCCCGAT
TTCAAGCTGGCATTTGAGCATTTCTGCATCCATGCCGGTGGCCGTGCCGTGCTGGATGAGCTGGAGAAGAACTTGGAGTT
GACTGACTGGCACATGGAGCCATCTAGGATGACCCTGTACCGGTTTGGCAACACATCGAGCAGCTCACTCTGGTATGAGC
TGGCGTACACCGAGGCGAAGGGGAGGATCAGGAAGCGGGACAGGATCTGGCAGATTGCATTTGGATCTGGTTTCAAGTGC
AACAGCGCAGTCTGGAAGGCACTGCGAACAGTGAACCCGGCGAAGGAGAAGAACCCCTGGATGGATGAGATTGACAACTT
CCCGGTTGAAGTTCCAAAGATATCAAAGGTTGGAAATGCATGA

ORF - retro_omer_23 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.36 %
Parental protein coverage: 98.28 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalAANDGAGAAGGERRRRLPDFQQSQSVRLKYVKLGYHYLITNGVYLLLTPLIALVAVHLSTLTAGDVAGLW
A.N.GA.AA....RRRLPDFQQS..VRLKYVKLGYHYLI..G.YLLL.PL.ALVAV.LST...GD.A.LW
RetrocopyAPNGGAAAAEQQQRRRLPDFQQS--VRLKYVKLGYHYLISHGMYLLLSPLMALVAVQLSTVSPGDIADLW
ParentalSHLRFNLVSVVACTTLLVLLSTVHFLTRPRPVYLVDFACYKPPPERRCSRDAFMRCSRLAGCFTAASLDF
..LRFNL.SVVAC.TLLV.LST..FLTRPRPVYL.DFACYKP.P.R.C.R..FMRCS.L.G.FT.A.LDF
RetrocopyEQLRFNLLSVVACSTLLVFLSTLYFLTRPRPVYLLDFACYKPDPQRKCTRETFMRCSSLTGSFTDANLDF
ParentalQRKIVERSGLGDDTYLPAAVLREPPNPSMAEARREAEAVMFGAVDDLLAKTGVSAKEIGVLVVNCSLFNP
QRKI.ERSGLG.DTYLP.AVLR.PPNP.M.EAR.EA.AVMFGA.D.LL.KTGV..K.IGV.VVNCSLFNP
RetrocopyQRKILERSGLGEDTYLPPAVLRVPPNPCMDEARKEARAVMFGAIDQLLEKTGVKPKDIGVVVVNCSLFNP
ParentalTPSLSAMVVNHYKLRGNIVSYNLGGMGCSAGLLAIDLAKDLLQVHPSSYALVVSMENITLNWYSGNDRSM
TPSLSAMVVNHYKLRGN..SYNLGGMGCSAGLL..DLAKDLLQVHP.SYALVVSMENITLNWY.GN.RSM
RetrocopyTPSLSAMVVNHYKLRGNVISYNLGGMGCSAGLLSVDLAKDLLQVHPNSYALVVSMENITLNWYFGNNRSM
ParentalLVSNCLFRMGGAAILLSNRWSERRRSKYELVHTVRTHKGGDDKCFGCVTQEEDGEGNVGVALSKDLMAVA
LVSNCLFRMGGAAILLSNR.S.RRRSKYELVHTVRTHKG..DKCFGCVTQEED..G..GV.LSKDLMAVA
RetrocopyLVSNCLFRMGGAAILLSNRRSDRRRSKYELVHTVRTHKGANDKCFGCVTQEEDEIGKIGVSLSKDLMAVA
ParentalGDALKTNITTLGPLVLPLSEQLLFMATLVAKKLLKMKNVKPYIPDFKLAFEHFCVHAGGRAVLDEIEKNL
GDALKTNITTLGPLVLPLSEQLLFMATLVAKK.LKMK..KPYIPDFKLAFEHFC.HAGGRAVLDE.EKNL
RetrocopyGDALKTNITTLGPLVLPLSEQLLFMATLVAKKVLKMK-IKPYIPDFKLAFEHFCIHAGGRAVLDELEKNL
ParentalSLGEWQMEPSRMTLYRFGNTSSSSLWYELAYSEAKGRVRRRDRVWQIAFGSGFKCNSAVWRALRSVNPEE
.L..W.MEPSRMTLYRFGNTSSSSLWYELAY.EAKGR.R.RDR.WQIAFGSGFKCNSAVW.ALR.VNP..
RetrocopyELTDWHMEPSRMTLYRFGNTSSSSLWYELAYTEAKGRIRKRDRIWQIAFGSGFKCNSAVWKALRTVNPAK
ParentalESVKKNPWMDEIDRFPVVVPRVSRI
E...KNPWMDEID.FPV.VP..S..
RetrocopyE---KNPWMDEIDNFPVEVPKISKV

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






RNA-Seq - click to see more details

Oryza meridionalis was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Oryza meridionalis was not studied using ChIP-Seq data.

EST - click to see more details

Oryza meridionalis was not studied using EST data.

TSS - click to see more details

Oryza meridionalis was not studied using FANTOM5 data.

Lab - click to see more details

retro_omer_23 was not experimentally validated.

Retrocopy orthology:
Oryza meridionalis 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
Oryza meridionalis OMERI02G08750 1 retrocopy
retro_omer_23 ,




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