RetrogeneDB ID:

retro_sbic_36

Retrocopy
location
Organism:Sorghum (Sorghum bicolor)
Coordinates:3:68793224..68794220(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:Sb03g041250
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:Sb06g026100
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_sbic_36
ATGTTTTACGGGGGATATGCTTACCATCGCAACTCGTTTGCGCAAATCTACCGTTGTTATCCACCATCCTTTGTTGGTAA
GCCACACCTAGAAGGCGGTGACAAAGTAATAATGCCACAGTCTGCCCTTGATTGTCTTGCTTCCTTGCACATCGAGTACC
CTATGCTCTTCGAGTTCGAGCTGCACAACGATGCTGCTGCTACCCAGCAGCGGGTTTCACACTGTGGCGTTCTGGAGTTC
GTAGCGGAAGAAGGCATGATCATCATGCCCTACTGGATGATGCAGAACATGCGTCTTGAAGAGGGCGACATCGTCCATGT
CAAGAACGCGGCTCTTCCCAAGGGAACATATGCGAAACTGCAGCCTCACACGAGTGATTTCCTGGACATCTCAAACCCGA
AGGTCGTCTTGGAAAAGACTCTGAGGAATTTCTCCTGCTTAACCACGGGAGACACCATCATGGTATCCTACAACAGCAAA
CAGTATTACATCGATATCGTTGAAACAAAGCCTGCTTCAGCAGTTTGCATTATTGAGACAGACTGTGAAGTGGACTTTGC
ACCTCCTCTTGATTATAAAGAACCTGCTGAGAAACCACGGCAATCAACAGTTCTTCCTGCAAGCAACAAGGCACCTGCGG
CTGGAGATGGCAACACTACTGCTGTGGAGGATGAACCGAAATTCAAACCATTTACTGGTTCTGGAAAGCGGTTGGATGGA
AAGGCCTCAAAACTGCAAGCATCTGATCAGGTTCCTAACACTGCAATTTCTGCACCTTCAGGTTCAAACAAAAGAGCAAA
TCAGCAAATCTCGGCACCGGCAGCTTCAGTAGGTAGCAATTACAGTCGACAGAAAGCTGGAAAGCTTGTTTTTGGTTCAA
GTGCAAGCAACAATAAGCAACTACAAAAGGCTCCTGCTAAAGAGGAGGAACCCACGAAAAAGGACGAGCCCAGGTTCCAA
GCGTTCAGTGGGAAGAGCTACTCATTGAAACGTTAG

ORF - retro_sbic_36 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.69 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMFYGGYAYHGNSFEQTYRCYPASFFDKPHLEGGDKVIMPPSALDRLASLHIEYPMLFE--LHNDAT---Q
MFYGGYAYH.NSF.Q.YRCYP.SF..KPHLEGGDKVIMP.SALD.LASLHIEYPMLFE..LHNDA....Q
RetrocopyMFYGGYAYHRNSFAQIYRCYPPSFVGKPHLEGGDKVIMPQSALDCLASLHIEYPMLFEFELHNDAAATQQ
ParentalRISHCGVLEFVAEEGMIIMPYWMMQNMLLQEGDTVHVKNATLPKGTYVKLQPHTTDFLDISNPKAILEKT
R.SHCGVLEFVAEEGMIIMPYWMMQNM.L.EGD.VHVKNA.LPKGTY.KLQPHT.DFLDISNPK..LEKT
RetrocopyRVSHCGVLEFVAEEGMIIMPYWMMQNMRLEEGDIVHVKNAALPKGTYAKLQPHTSDFLDISNPKVVLEKT
ParentalLRNFSCLTTGDSIMVAYNNKQYYIDIVETKPASAVSIIETDCEVDFAPPLDYKEP-EKPRQPTV--PAGK
LRNFSCLTTGD.IMV.YN.KQYYIDIVETKPASAV.IIETDCEVDFAPPLDYKEP.EKPRQ.TV.....K
RetrocopyLRNFSCLTTGDTIMVSYNSKQYYIDIVETKPASAVCIIETDCEVDFAPPLDYKEPAEKPRQSTVLPASNK
ParentalAPAE-DGN-TVVEDEPKFKPFTGSGKRLDGKASKLQSS-VGPSTALSAPSDSNKRGNQQMSAPAASGASN
APA..DGN.T.VEDEPKFKPFTGSGKRLDGKASKLQ.S...P.TA.SAPS.SNKR.NQQ.SAPAAS..SN
RetrocopyAPAAGDGNTTAVEDEPKFKPFTGSGKRLDGKASKLQASDQVPNTAISAPSGSNKRANQQISAPAASVGSN
ParentalYSRQKTGKLVFGSSASNNKEPQKAPVKEEEPAKKDEPRFQAFSGKSYSLKR
YSRQK.GKLVFGSSASNNK..QKAP.KEEEP.KKDEPRFQAFSGKSYSLKR
RetrocopyYSRQKAGKLVFGSSASNNKQLQKAPAKEEEPTKKDEPRFQAFSGKSYSLKR

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_36 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 2 parental genes, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Oryza sativa indicaBGIOSGA0169681 retrocopy
Sorghum bicolor Sb06g026100 1 retrocopy
retro_sbic_36 ,



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