RetrogeneDB ID:

retro_bole_28

Retrocopy
location
Organism:Brassica oleracea
Coordinates:C8:21080694..21083181(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:Bo8g066140
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:Bo9g169030
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_bole_28
ATGGATTCTCAAACGAGACCTAAGAATCCTGGTACTACTCACCCTAAACCCCACGGTGTCCCCGCTTCGACCGTCCGTGG
ACAGAAGAGAGGTTCCAGAAGCTACGCCGACGTTGATCCTAATAACTTGCCCGTCAAGAAACCGAGGACGATGGTTAGCC
CTCACCAAACCGGTAACAAAATCGCGGAACCGAGAACTCGGAGGCTCTCTAGACAATTCTGGAAAGCAGGAGACGACAAA
GAAGACGAGCGTCCGCCTCGCAACTGCGGCAACGACGCGGCGATTAAAGTTCACCCTCAGTTTCTTCACGCCAACGCCAC
CAGCCACAAGTGGGCGCTCGGAGCCTTCGCCGAGCTCTTGGACAACTCTCTAGACGAGGCGTGTAACGGTGCGACATACG
TTCACGTGGACTCAACGACGAATCAAAAGGACGGTAAGAGCAGCATGCTCATAGTTCAAGACAACGGGGGCGGGATGGAT
CCGAACAGGTTTAGAGAGTGTCTCTCTTTAGGTTATTCAAGAAAACGTAACGTGGCTAACACGGTTGGTCAATACGGTAA
CGGGTTCAAGACTAGTACGATGAGACTTGGCGCTGACGCAATCGTCTTCACGCGTTCTAGAGGAGCCAACTCTGGTAACA
CGACGCAGAGCGTTGGTATGTTGTCGTATACTTACCTCTACGAGACGAGGAAGAGCGAAGCCGTGGTCCCCACGGTGGAC
TTTGAGCTGGTGGATAACAACTGGGTTGCGTTGACGCACGGCGATAGAGATAAGTGGTTTGATAACCTAGAGACTATAGT
GAAGTGGTCTCCTTATGTCTCTCAACAAGCTATGTTCGACCAGTTTGATTTACTTGAGGAGCAAGGTACTCAAATCGTTA
TTTATAATCTATGGGATGATGATGAAGGGAAGCTGGAGCTTGATTTCGACACTGATGGTCACGATATTCAACTCAGAGGT
GTGAATAGAGATGAGAAGAAGATAGAGATGGCTAAAGCTCACCCTAACTCGAGGCACTTCTTGACTTATCGTCACTCTCT
ACGCAGCTATGCGTCGATATTGTATCTCAGACTTCCACCAAACTTCAGAATCATACTCCGCGGCAAAGAAGTGGAGCATC
ACAGCTTGTTGGAGGACATGATGATGACCGAAGACATAACGTATAGGCCTGTGGCTTCTCCGGAGTTGTCATCAGATGAA
GACATGGTTGCTGCTCTAAAGATTGGTTTTGTGAAAGATGCTCATCATCACATTGACATACAAGGGTTCAATGTCTACCA
CAAGAACCGGCTTATCAAGCCCTTTTGGAGGGTTTGGAACGCTGCTGGAAGCGATGGACGCGGTGTGATTGGTTTGCTTG
AAGCTAACTTTATACAGCCAGCTCACAACAAGCAAGGGTTTGAGAGGACCGCTCTTCTTGCTAGAGTTGAGAACAGGTTG
AACAAGTATCAGAAGACTTATTGGTCTAAGAGGTGTCATGAGATTGGGTATGCTCCAAGGAGGATTCAGAAGAATCATGA
AAGTGGTGTCACTGAAGCTCCTACTAGTGCAGATCCAGCTCAGTGCAGGCCAAATAGAAACTCTCAGAAGGAGACTACAC
AACCAAGTGTTGCTAACAGAACGCATGAGATTGGGCTTAAGAACAGGACTAATGGGCTTGGGGTGAGTTGCAAGGAAACA
AGGTTAGTTCATCAAGCAGCTGAGTTTCAGAAGCAGAAGGCACAGCTTGAGCCGCAAGTCAGACATCCAAAAGCTAGGGT
TCAAGAATTGGAGAAGAGACAGAAAGCACAGCTTGAGGAGAAGACAAGAAATTTAAAAAATGTAGAGACAAAACAGGTGG
CTGAGTTGCAGAGACAGAAGAGACAGCTTGAGCTGCAACTCAGACAGTCAAAATCCAAGGTTCAAGATTTGGAGAAGAGG
CCCAAGGTCAAAGATTATGAGTCAGCAAAACTTGTGGTTGAGCTGCAGAGACAGAAGGGACAGCTTGAGTTGCAAATCAA
GCAGTCACAGTATAAAATTCAAGATTTGGAGAAGAGGCACAAGGTCAAAGAGGATGATCTCCAGAGACAGAAAGCCTGTC
TTGAGTTATCAAAGTCTGTAGTCCAAGACTTGGAGGATTCACTCAAGGTGAAAGATGTTGAATCATCAAAACTGGTGGAG
GAGTTACATGAACATAAAGCTAAGATCCAGGATTTGGAGGAATCTCAAAAGGTTGTAGATGAATTGGTGGTAGAGCTGCA
GAGAGATAGAGGGTTGCTTGAGTCACAACTCAAGGTGTCACAAGCAAAGAACCAAGAGTTTGAAAAGTCGCAGAAGGCAG
TGATGGATGTATTTCAAGAAGAAAGAGGCCGCAGAGATGTGACAGAGGATGCATTGAGGAAGAAACTACGAGGAGCCTAT
GATGTCATGGACACGCTAAAAATGAAAGTGAATGCCCTTGAAGCGGACCAAGCATTTTGTAAGAAGGTTCACATGCACAT
GCTTTAA

ORF - retro_bole_28 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.58 %
Parental protein coverage: 56.27 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalIVEADTPRLSRQFWKAGDDNEDEPVPRYCSNDAAVRVHPQFLHANATSHKWALGALAELLDNSLDEVCNG
I.E..T.RLSRQFWKAGDD.EDE..PR.C.NDAA..VHPQFLHANATSHKWALGA.AELLDNSLDE.CNG
RetrocopyIAEPRTRRLSRQFWKAGDDKEDERPPRNCGNDAAIKVHPQFLHANATSHKWALGAFAELLDNSLDEACNG
ParentalATYVHVNSATNEKDGKSSILIVEDNGGGMDPGRFRECLSLGYSRKRNMANKVGQYGNGFKTSTMRLGADA
ATYVHV.S.TN.KDGKSS.LIV.DNGGGMDP.RFRECLSLGYSRKRN.AN.VGQYGNGFKTSTMRLGADA
RetrocopyATYVHVDSTTNQKDGKSSMLIVQDNGGGMDPNRFRECLSLGYSRKRNVANTVGQYGNGFKTSTMRLGADA
ParentalIVFSRCRGANGNKTTQSIGMLSYTFLYETRKCEAIVPTVDFELVDNSWKEITYNSTDEWFDNLETIVKWS
IVF.R.RGAN...TTQS.GMLSYT.LYETRK.EA.VPTVDFELVDN.W...T....D.WFDNLETIVKWS
RetrocopyIVFTRSRGANSGNTTQSVGMLSYTYLYETRKSEAVVPTVDFELVDNNWVALTHGDRDKWFDNLETIVKWS
ParentalPYSTQDQLFDQFDHLEEQGTRIVIYNLWDDDEGKLELDFDTDPHDIQLRGVNRDEKNIEMAKTYPNSRHF
PY..Q...FDQFD.LEEQGT.IVIYNLWDDDEGKLELDFDTD.HDIQLRGVNRDEK.IEMAK..PNSRHF
RetrocopyPYVSQQAMFDQFDLLEEQGTQIVIYNLWDDDEGKLELDFDTDGHDIQLRGVNRDEKKIEMAKAHPNSRHF
ParentalLTYRHSLRSYVSILYLRLPPNFKIILRGKEVEHHSLLDDMMMTEDKTYRPVRSAECSSNEEMVADLKLGF
LTYRHSLRSY.SILYLRLPPNF.IILRGKEVEHHSLL.DMMMTED.TYRPV.S.E.SS.E.MVA.LK.GF
RetrocopyLTYRHSLRSYASILYLRLPPNFRIILRGKEVEHHSLLEDMMMTEDITYRPVASPELSSDEDMVAALKIGF
ParentalVKDAHHHIDIQGFNVYHKNRLIKPFWRVWNAAGSDGRGVIGLVEANFIQPAHNKQGFERTAVLAKLENRL
VKDAHHHIDIQGFNVYHKNRLIKPFWRVWNAAGSDGRGVIGL.EANFIQPAHNKQGFERTA.LA..ENRL
RetrocopyVKDAHHHIDIQGFNVYHKNRLIKPFWRVWNAAGSDGRGVIGLLEANFIQPAHNKQGFERTALLARVENRL
ParentalLSYQKTYWSSRCHEIGYAPRRKQANHVSSSTETTRQGEKKSEAPFNN
..YQKTYWS.RCHEIGYAPRR.Q.NH.S..TE...........P..N
RetrocopyNKYQKTYWSKRCHEIGYAPRRIQKNHESGVTEAPTSADPAQCRPNRN

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






RNA-Seq - click to see more details

Brassica oleracea was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Brassica oleracea was not studied using ChIP-Seq data.

EST - click to see more details

Brassica oleracea was not studied using EST data.

TSS - click to see more details

Brassica oleracea was not studied using FANTOM5 data.

Lab - click to see more details

retro_bole_28 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 1 retrocopy.

Species Parental gene accession Retrocopies number
Brassica oleracea Bo9g169030 1 retrocopy
retro_bole_28 ,


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