RetrogeneDB ID:

retro_sbic_43

Retrocopy
location
Organism:Sorghum (Sorghum bicolor)
Coordinates:9:3589037..3590804(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:Sb09g003220
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:Sb01g050330
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_sbic_43
ATGTTGGAGGAGCTGCTCATCTTCACGCGCGGCGGCCTGATCCTATGGGCGCTCAGCGGCGGCGGCGGCGGCAAGGGCTC
GCCGGTGGACGCGCTCATCCGCAACTGCCTCCTCGAGGAGCGGTCCGCCGGCGGCGACGGGCCGGGCTTCTTCCAGGACG
GCAAGCACGCGCTCAAGTGGGCGTTCCACAACGGGCTCGGCCTCGTCTTCGTGGCGGTGTACCGGCGCGTGCTCCGCCTC
CTCTACGTCGACGACCTCCTCGCCGCCGTCCGCGCCGAGTTCGCGCGGGTCTATCACCCCAAGCGCACCACCTACGACGG
CTTCGGCGACGTGTTCCGGCAGCTCCACCTCGAGGCCCAAGCGCGCGCCGAGGAGATGAGCAGGGCGAATAATAAACAGA
AGCCCGTTGATGCTGCGTCGCCCCATCGCCGTCCGCGGCCACAACCACCTGTCGTCCACAATTCTCCTGGTGATTCTGAA
TCTGACGGCAATGGTGGCAATGGTGATGGGAGCAAGAAGGATTCCTCCGATGGCGTCTCCGGGGAGAAAGAGGAGGAGAA
GGAAGATGGCCAGGCCTTTGATCTGAGTTTCTTCTCGAATCTGCGAACAAGGTTCACCCACAGAAATAAGGATAAGACTA
ACACCAACAAGCCGATCAAGAAAGATGTTAATAAGAGGAAAAACCCTAGGGATGGGAACAACAATGAGCATTCAGACAGG
AAGCTGGATTTCTCAGACCCAACTGATGCCAGCAAGCAGACGGATAATGCGCGAGTCAATCAGGGACAGAGCAAGGTCGA
TCTTGCTGAAACGGTTGAAGATGGCACAAGAACCAAAGGATGGTTCTCCTCAGTGTTCCAGAGCATCGCAGGTGGCAACA
GCGTAATCGAAAGGTCCGATCTGCAACCAGCGCTCAAGGCTCTCAAAGACAGGCTGATGACCAAGAACGTGGCGGAGGAG
ATCGCCGAGAAGCTCTGCGAGTCCGTGGCGGCAAGCCTGGAGGGCAAGAAGCAGGGGTCTTTCACGAGCACAGCCTCCAC
CGTCCAGGCAGCCATGGAGGCGGCTCTCGTGCGCATCCTGACGCCAAGCCGGTCCATCGACGTGCTGAGAGACGTGCACG
CGGCCAAGGACAGTGGGAGGCCGTACGTCATCGTCTTCGTCGGGGTGAACGGCGTCGGCAAGTCCACCAACCTCGCCAAG
GTCGCCTACTGGCTCCTCCAGCACGACCTCACCGTCACCCTCGCGGCGTGCGACACCTTCCGGTCCGGCGCCGTCGAGCA
GCTGCGCACCCACGCGCGCAGGCTCCAGATACCCGTCTTCGAGAAAGGGTACCAGAGAGACCCGGCGGTCGTGGCGAAGC
AGGCCATAGAGGAAGCGGCGCGGAGCAGGTCAGACGTCGTCCTGGTCGACACCGCTGGGCGTATGCAGGACAACGAGCCG
CTCATGAGGGCGCTCTCCAAGCTCATCGCCGTCAACAGCCCGGACCTCGTCCTGTTCGTCGGAGAGGCGTTGGTTGGGAA
CGACGCCGTCGATCAGCTCACCCAGTTCCACCAGAAGCTCGCGGACCTGTCGCCTGTTCATGTAGAGAAGAGGTTGATCG
ATGGCATCCTGCTCAGCAAGTTTGACACGGTTGATGACAAGGTTGGTGCGGCGCTCTCCATGGTTTATGTGTCTGGAGCT
CCGGTCATGTTTGTTGGCTGTGGTCAGTCTTACACTGACCTCAAGAAGCTGAATGTTAAGTCCATTGTTAACACCCTGCT
CAAGTGA

ORF - retro_sbic_43 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.89 %
Parental protein coverage: 50.8 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalEEVEDGPKKKGWFSSMFQSIAG-NNVLEKSDLQPALKALKDRLMAKNVAEEIAEKLCESVAASLEGKKLG
E.VEDG...KGWFSS.FQSIAG.N.V.E.SDLQPALKALKDRLM.KNVAEEIAEKLCESVAASLEGKK.G
RetrocopyETVEDGTRTKGWFSSVFQSIAGGNSVIERSDLQPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKQG
ParentalSFTRISSTVQTAMEDALLRILTPRRSIDILRDVHAAKERGRPYVIVFVGVNGVGKSTNLAKVAYWLLQHN
SFT...STVQ.AME.AL.RILTP.RSID.LRDVHAAK..GRPYVIVFVGVNGVGKSTNLAKVAYWLLQH.
RetrocopySFTSTASTVQAAMEAALVRILTPSRSIDVLRDVHAAKDSGRPYVIVFVGVNGVGKSTNLAKVAYWLLQHD
ParentalLSVTLAACDTFRSGAVEQLRTHARRLQIPIFEKGYEKDPAVVAREAIQEATRNKSDVVLVDTAGRMQDNE
L.VTLAACDTFRSGAVEQLRTHARRLQIP.FEKGY..DPAVVA..AI.EA.R..SDVVLVDTAGRMQDNE
RetrocopyLTVTLAACDTFRSGAVEQLRTHARRLQIPVFEKGYQRDPAVVAKQAIEEAARSRSDVVLVDTAGRMQDNE
ParentalPLMRALSKLINLNSPDLVLFVGEALVGNDAVDQLTKFNQKLADLSAVPT-ARLIDGILLTKFDTIDDKVG
PLMRALSKLI..NSPDLVLFVGEALVGNDAVDQLT.F.QKLADLS.V....RLIDGILL.KFDT.DDKVG
RetrocopyPLMRALSKLIAVNSPDLVLFVGEALVGNDAVDQLTQFHQKLADLSPVHVEKRLIDGILLSKFDTVDDKVG
ParentalAALSMVYISGAPVMFVGCGQSYTDLKKLNVKSIVKTLLK
AALSMVY.SGAPVMFVGCGQSYTDLKKLNVKSIV.TLLK
RetrocopyAALSMVYVSGAPVMFVGCGQSYTDLKKLNVKSIVNTLLK

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






Sorghum bicolor was not studied using RNA-Seq expression data.
Sorghum bicolor was not studied using ChIP-Seq data.
Sorghum bicolor was not studied using EST data.
Sorghum bicolor was not studied using FANTOM5 data.
retro_sbic_43 was not experimentally validated.

Retrocopy orthology:
Sorghum bicolor 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 3 parental genes, and 3 retrocopies.

Species Parental gene accession Retrocopies number
Brachypodium distachyon BRADI1G782201 retrocopy
Sorghum bicolor Sb01g050330 1 retrocopy
retro_sbic_43 ,
Setaria italica Si034718m.g1 retrocopy



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