RetrogeneDB ID:

retro_chof_1339

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_268021:610..1583(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:BUB3
Ensembl ID:ENSCHOG00000010213
Aliases:None
Description:BUB3 mitotic checkpoint protein [Source:HGNC Symbol;Acc:1151]


Retrocopy-Parental alignment summary:






>retro_chof_1339
ATGACCAGCTCTAATGAGTTCAAGCTGAACCAGCCACCTGAGGATGGCATCTCTTCAGTGAAGTTCAGCCCCAACACCTC
CCAGTTCCTGTTGGTCTCCTCCTGGGACACATTCATGTGCCTGTATGATGTGTCCGCCAACTCCATGCGACTCAAGTACC
AGCACACCAGCGCGGTTCTGTACTGCGCGTTCTACAATCCAACACTTGCCTGGAGTGGGGGATTAGATCATTGATTGAAA
ATGCATGATTTGAACACTGATCAAGAAAATCTAGTTGGAACCCATGATGCCCCTATCAGATGTGTTGAATACTGTCCGGA
AGTGAATGTGATGGTTACTGGAAGCTGGGATCAGACAGTTAAATTGTGGGATCCCAGAACTCCTTGTAATGCCAGAACCT
TCTCTCAGCCTGAAAAGGTATACACTCTCTTGGTGTCTGGAGACCGGTTGATCGTGGGGACGGCGGGCCGCAGAGTGTTG
GTCTGGGACTTAGGGAACATGGGCTATATGCAGCAGTGCCGAGAGTCCAGCCTCAAGCACCAGACCTGCTGCATACAGGC
CTTCCCAAACAAGCAGGGTTACGTGTTAGGCTCTATTGAAGGCGGGTGGTGGTTGCGTACTTGGACCCAAGCCCTGAAGT
ACAGAGGAAGAAGTATACCTTCAAATGTCACAGACTAAAGGAAAATAATATTGAGCAGATTTACTCAGTCAATGCCATTT
TGTTTCATAACATCCACAATATATTTGCCACAGGTGGTTCTGATGGGTTTGTAAATATTTGGGATCCCTTTAACAAAATG
TGGCTGTGCCAGTTCCATCGGTATCCCACTAGCATCGCTTCACTTGCCTTCAGCAATGACGGGACTACACTTCAATAGCA
TCATCATGTATGTATGAAATGGATGACACTGAACATCCTGAAGATGGTATCTTCATTCGCCAATTGACAGTTGCAGAAAC
AAAACCCAAGTCC

ORF - retro_chof_1339 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.99 %
Parental protein coverage: 99.09 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMTGSNEFKLNQPPEDGISSVKFSPNTSQFLLVSSWDTSVRLYDVPANSMRLKYQHTGAVLDCAFYDPTHA
MT.SNEFKLNQPPEDGISSVKFSPNTSQFLLVSSWDT...LYDV.ANSMRLKYQHT.AVL.CAFY.PT.A
RetrocopyMTSSNEFKLNQPPEDGISSVKFSPNTSQFLLVSSWDTFMCLYDVSANSMRLKYQHTSAVLYCAFYNPTLA
ParentalWSGGLDHQLKMHDLNTDQENLVGTHDAPIRCVEYCPEVNVMVTGSWDQTVKLWDPRTPCNAGTFSQPEKV
WSGGLDH.LKMHDLNTDQENLVGTHDAPIRCVEYCPEVNVMVTGSWDQTVKLWDPRTPCNA.TFSQPEKV
RetrocopyWSGGLDH*LKMHDLNTDQENLVGTHDAPIRCVEYCPEVNVMVTGSWDQTVKLWDPRTPCNARTFSQPEKV
ParentalYTLSVSGDRLIVGTAGRRVLVWDLRNMGYVQQRRESSLKYQTRCIRAFPNKQGYVLSSIEG-RVAVEYLD
YTL.VSGDRLIVGTAGRRVLVWDL.NMGY.QQ.RESSLK.QT.CI.AFPNKQGYVL.SIEG.RV.V.YLD
RetrocopyYTLLVSGDRLIVGTAGRRVLVWDLGNMGYMQQCRESSLKHQTCCIQAFPNKQGYVLGSIEG<RVVVAYLD
ParentalPSPEVQKKKYAFKCHRLKENNIEQIYPVNAISIHNIHNTFAAGGSDGFVNIWDPFNKKRLCQFHRYPTSI
PSPEVQ.KKY.FKCHRLKENNIEQIY.VNAI..HNIHN.FA.GGSDGFVNIWDPFNK..LCQFHRYPTSI
RetrocopyPSPEVQRKKYTFKCHRLKENNIEQIYSVNAILFHNIHNIFATGGSDGFVNIWDPFNKMWLCQFHRYPTSI
ParentalASLAFSNDGTTL-AIASSYMYEMDDTEHPEDGIFIRQVTDAETKPKS
ASLAFSNDGTTL..IASS.MYEMDDTEHPEDGIFIRQ.T.AETKPKS
RetrocopyASLAFSNDGTTL<SIASSCMYEMDDTEHPEDGIFIRQLTVAETKPKS

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






Choloepus hoffmanni was not studied using RNA-Seq expression data.
Choloepus hoffmanni was not studied using ChIP-Seq data.
Choloepus hoffmanni was not studied using EST data.
Choloepus hoffmanni was not studied using FANTOM5 data.
retro_chof_1339 was not experimentally validated.

Retrocopy orthology:
Choloepus hoffmanni 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
Choloepus hoffmanni ENSCHOG00000010213 1 retrocopy
retro_chof_1339 ,
Macaca mulatta ENSMMUG000000030921 retrocopy
Sarcophilus harrisii ENSSHAG000000103721 retrocopy



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