RetrogeneDB ID:

retro_bole_45

Retrocopy
location
Organism:Brassica oleracea
Coordinates:C2:20038762..20039510(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:Bo1g071100
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_bole_45
GATATAACTCTGATACTAGGACTGAAACCCTCACCCTCGGGTGCTCCGGATGGATTTATTTGGAACCACACAAAATCAGG
GGTATACTCCGTCAAAACAGGCTATGACCTTATACGGTCACACAAGTCAAGTCATTCACGAGAAGGTGCTTCGGAACCGA
GTATCACAGGCCTTCAGAGCCATGCATGGAAGATCCAGGCCCCCAACAAAATGAAGCATTTTTTGTGGCAAGCAGTCTCC
GGTTGTGTGGCAACGGCCGAAAGACTCATGTATAGACACCTGGGCACCGATAGGAGTTGTCCTAGATTTGCTGGCCCAGT
GGAGTCGATTAATCATCTTCTATTTGAATGCCCCCCCGCCCTTCAGGTTTGGGCTTTATCGGACTATCCGTCCCTTCCGG
GTTACTTCCCGAGTACATCTATCTATCAAAACATGAACTTCCTTTTCTGGAAGCGAAAAGAGGTGGCTCCGTCGAGTCCA
CAATTCGATATTTTCCCTTGGATCTGCTGGTTCATTTGGAAAGCTAGAAACGATAAGTTATTCAATGGGAAAGATGTTTC
ACCCATGGATACCCTTCGTCATGCCTCCAATGAGGCTGAATGTTGGAAAAAAGCTAATGAAAAGGAGGAAGAGGAGGATG
GCCGTGACGACCCGCTATCCTCGGAAACTATGATGTTGCCTCCTTGGATATCCCGAATCCCTACCTGCCAAATTGATGCT
TCATGGATCAACAATGGCAGGGTCAGTG

ORF - retro_bole_45 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 62.3 %
Parental protein coverage: 88.57 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalDASDILGLKVEASSMSFNFVKLSKSDSAGIVRNVESMGKNEKEEEMIQRSEKSERKGTKSHVWKIKAPSK
D...ILGLK...S.....F...........V..........K..............G..SH.WKI.AP.K
RetrocopyDITLILGLKPSPSGAPDGFIWNHTKSGVYSVKTGYDLIRSHKSSHSREGASEPSITGLQSHAWKIQAPNK
ParentalMKHFLWQVISGCVATAERLTYRPMSTDMICPRCAGPVESINHLLFECPQALQVWALSDYMSLPGYFPSTS
MKHFLWQ..SGCVATAERL.YR...TD..CPR.AGPVESINHLLFE...ALQVWALSDY.SLPGYFPSTS
RetrocopyMKHFLWQAVSGCVATAERLMYRHLGTDRSCPRFAGPVESINHLLFEXXXALQVWALSDYPSLPGYFPSTS
ParentalIYQNMNFLFWFWERKEVAPLGPQFDTFP--CWYIWKARNDKLFNGKDVSPIDTLQHASLEADCWRKANEK
IYQNMNFLFW...RKEVAP..PQFD.FP..CW.IWKARNDKLFNGKDVSP.DTL.HAS.EA.CW.KANEK
RetrocopyIYQNMNFLFW--KRKEVAPSSPQFDIFPWICWFIWKARNDKLFNGKDVSPMDTLRHASNEAECWKKANEK
ParentalEEANEDHDDPLL-QRLRQCPLGYPE-LPVKLMHHGSIMAASV
EE.....DDPL....L..C.LGYPE.LP.KLM.HGS.MA.SV
RetrocopyEEEEDGRDDPLS>RKL*CCLLGYPESLPAKLMLHGSTMAGSV

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






Brassica oleracea was not studied using RNA-Seq expression data.
Brassica oleracea was not studied using ChIP-Seq data.
Brassica oleracea was not studied using EST data.
Brassica oleracea was not studied using FANTOM5 data.
retro_bole_45 was not experimentally validated.

Retrocopy orthology:
Brassica oleracea 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 7 retrocopies.

Species Parental gene accession Retrocopies number
Brassica oleracea Bo1g071100 7 retrocopies



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