RetrogeneDB ID:

retro_sbic_28

Retrocopy
location
Organism:Sorghum (Sorghum bicolor)
Coordinates:2:77657785..77658481(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:Sb02g043850
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:Sb01g038100
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_sbic_28
ATGGCGATGACCACTACCACCACCACCACCACCACACCCAAAAGCACCAGCAGCAGCCCCGGCGCGTACGTCGCCAAGCC
TCCCCCGCCGCCGCCGGGCTACGTCGACGTCGTCCACAACAAGGCGGCGCCGGCGGCGTACGATTCCTACAACGGACGAC
GACAAGGAGGCGGCGCGGCGGCCACGGCCACCAGCAGGGCCTCCTCCGACTACGACGAAGACCGTTACCAGCAGCAGGCG
GCGGCGGGAGCGCGGGCGCTGGACGGGCTCCTGCTGCTGCTGCGCGCGGCCGCGTCGGTCATGTCGTTCGTGGCCGTCGC
GCTCGTCGCGTCCTGCCGCCACGGCGACTGGATGGAGTTCGCGCGCTACCCGGAGTACAGGTGCCTCCTGGGGGCCTCCG
TGCTCGCCTGCGTCTACGCCGCCGCGCAGGCGCTTCGGGTCTTCCGACGGATGCGCGCCGCCGGCTACGGCGGGAGATCG
GGAGGCGGAGGCGGCCTCGCGGATTTCGCCGGCGATCAGGTGGTGGCGTATCTGCTCATCGCGGCGTCGGCGGCGGCTCT
CCCCATCACCCTCCGCATGAGATCCGCCGTCCTCAACGTCTTCACGGACGCCATGACGGCCGCCATCAGCCTCGGTTTCA
TCGCCTTTGCAGCGCTCGCCTTGTCCGCCATGCTCTCCGGATTCTTCACACTCTAG

ORF - retro_sbic_28 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 57.75 %
Parental protein coverage: 64.09 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLDKSPLALHAAAAIFAFVALVLVASNQHGDWMQFDRYQEYRYLLAIASLALLYSLAQAARHAHRMRG-GV
LD...L.L.AAA....FVA..LVAS..HGDWM.F.RY.EYR.LL....LA..Y..AQA.R...RMR..G.
RetrocopyLDGLLLLLRAAASVMSFVAVALVASCRHGDWMEFARYPEYRCLLGASVLACVYAAAQALRVFRRMRAAGY
ParentalDPVSSASARLLDFVGDQVVAYLLMSALSAAVPITNRMRSAVVNNFTDATAAAISMAFFSFVALALSAVVS
...S.....L.DF.GDQVVAYLL..A..AA.PIT.RMRSAV.N.FTDA..AAIS..F..F.ALALSA..S
RetrocopyGGRSGGGGGLADFAGDQVVAYLLIAASAAALPITLRMRSAVLNVFTDAMTAAISLGFIAFAALALSAMLS
ParentalGY
G.
RetrocopyGF

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_28 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
Zea mays GRMZM2G0074751 retrocopy
Leersia perrieri LPERR03G123901 retrocopy
Sorghum bicolor Sb01g038100 1 retrocopy
retro_sbic_28 ,



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