RetrogeneDB ID:

retro_ogar_3491

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873926.1:82388..84710(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000024794
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:CUL1
Ensembl ID:ENSOGAG00000014715
Aliases:None
Description:cullin 1 [Source:HGNC Symbol;Acc:2551]


Retrocopy-Parental alignment summary:






>retro_ogar_3491
ATGTCGTCAACCACGAGCCAGAACTCACATGGCCTGAAACAGATCAGCCTGGACCAGATCTGGGATGACCTCAGAGCTGG
CATACAGCAGGTGTACACCCGACAGAACATGGTGAGGTCCAGATACATGGAGCTCTACACTCATGTTTATAACTACTGTA
CTAGTGTACAAGAGTCAGACCAAGTACAAGAAGCTGAGGTCCCTCCCTCTAAATCCCAAAATGAGCAGACACCTGGAGGA
GCTCAGTTTGTTGGCCTGGAATTGTACAAACGGCTTAAGGAATTTTTGAAAAATTACTTGACAGATCTTCTCAAGGATGG
AGAAGATTTGATGGATGAGAGTGTACTAAAGTTCTACACTCAACAGTGGGAAGATTATCGATTTTCAAGCAAAGTGCTGA
ATGGAATTTGTGCCTACCTCAGTAGACATTGGGTTCGCCGTGAATGTGATGAAGGGCGAAAAGGAGTATATGAAATTTAT
TCCTTGGCATTGGTGAATTGGAGAGATTCTCTTTTCAGTCCATTGAATAAACAGGTAACAAATGCTGTTTTAAAACTTAC
TGAAAAGGAAAGAAATGGTGAAACTATTAATACAAGGCTGATTAGTGGAGTTGTACAGTCATATGTGGAACTGGGGCTGA
ACGAAGATGATGCATTTGCAAAGGGCCCTATATTAACATTGTATAAAGAGTCCTTTGAATCTCAATTTTTGGCTGATACG
GAGAGATTTTATACCAGAGAGAGCATTGAATTCTTGCAGCAGAACCCAGTTATCGAATATATGAAAAAGGCAGAGGCTCG
TCTGCTTGAGGAAAAACGAAGAGTTCAGGTTTATCTTCATGAAAGCACACAGGATGAATTAGCAAAGAAGTGTGAGCAAG
TCCTCATAGAAAAACACCTGGAACTGTTTCACACAGAATTTCAGAATTTATTAGATGCTCACAAAACTGAAGACTTGGGA
CGCATGTATAATCTTGTGTCTAGAATCCAGGATGGCCTAGGAGAATTGAAAAAACTGCTGGAGGCACACATTCATAATCA
GGGTCTTTCAGCCATTGACAAGTGTGGAGAAGCTGCTTTAAATGACCCCAAAATGTATGTACAGATGGTGCTGGATGTTC
ACAAAAAATACAATGCCCTGGTAACATCTGCATTTGATAATGATGCTGGCTTTGTGGCTGCTCTTGATAAGGCTTGTGGG
CGCTTCATAAACAACAATGCAATTACCAGGGTAGCCCAGTCATCCAGCAAGTCCCCTGAGCTGCTAGCTCGGTACTGTGA
CTCCTTGTTGAAAAAAAGTTCCAAGAACCCAGAAGAGGCAGAGCTGGAAGACACACTCAATCAAGTAATGATTGTCTTCA
AGTACATAGATGACAAGGATGTGTTTCATAAGTTCTATGCAAAGATGCTGGCCAAGAGGCTGGTACATCACAACAGCGCG
AGTGATGATGCTGAAGCAAGCATGATATCCAAGTTGAAGCAAGCTTGTGGTTTTGAGTATACCTCTAAACTTCAGCGGAT
GTTTCAAGACATTGGTGTAAGCAAAGATTTGAATGAGCAATTCAAAAAGCACCTGACAAATTCAGAACCACTAGACTTGG
ACTTCAGTATTCAGGTTCTCAGCTCTGGATCCTGGCCCTTCCAGCAGTCCTGTACATTTTCCTTGCCATCGGAGCTGGAA
CGTAGTTACCAGAGGTTCACAGCCTTCTATGCCAGTCGTCACAGTGGCAGAAAGCTGACCTGGTTGTATCAGTTGTCTAA
AGGAGAGTTGGTAACTAATTGCTTCAAAAACAGGTATACTTTGCAGGCCTCTACATTGCAGATGGCAATCCTATTTCAGT
ATAACACGCAAGATGCCTACACTGTGCAGCAATTGACTGACAGCACACAAATTAAAATGGACATTTTAGTACAAGTCCTA
CATATTTTATTGAAGTCAAAGTTGTTGGTCATGGAGAATGAAAATGTCAATGAGTTGGAACTGAAGCCAGATACCTTAAT
AAAATTATATCTTGCTTATAAAAATAAGAAATTAAGGGTTAACATCAATGTACCAATGAAAACTGAACAGAAGCAGGAAC
AAGAAACGACACACAAAATTATTGAGGAAGACCGCAAACTACTGATTCAGGCGGCCATCGTGAGGATCATGAAAATGCGG
AAAGTTCTGAAACACCAGCAGTTACTTGGAGAAGTCCTCACTCAGCTGTCCTCCAGATTCAAACCGCGGGTCCCAATGAT
CAAGAAATGCATTGACATTCTAATTGAGAAAGAATATTTGGAGCGAGTGGATGGTGAAAAGGACACCTACAGCTACTTGG
CT

ORF - retro_ogar_3491 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 92.27 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMSSTRSQNPHGLKQIGLDQIWDDLRAGIQQVYTRQSMAKSRYMELYTHVYNYCTSVHQSNQARGAGVPPS
MSST.SQN.HGLKQI.LDQIWDDLRAGIQQVYTRQ.M..SRYMELYTHVYNYCTSV..S.Q...A.VPPS
RetrocopyMSSTTSQNSHGLKQISLDQIWDDLRAGIQQVYTRQNMVRSRYMELYTHVYNYCTSVQESDQVQEAEVPPS
ParentalKSKKGQTPGGAQFVGLELYKRLKEFLKNYLTNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGICAYL
KS...QTPGGAQFVGLELYKRLKEFLKNYLT.LLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGICAYL
RetrocopyKSQNEQTPGGAQFVGLELYKRLKEFLKNYLTDLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGICAYL
ParentalNRHWVRRECDEGRKGIYEIYSLALVTWRDCLFRPLNKQVTNAVLKLIEKERNGETINTRLISGVVQSYVE
.RHWVRRECDEGRKG.YEIYSLALV.WRD.LF.PLNKQVTNAVLKL.EKERNGETINTRLISGVVQSYVE
RetrocopySRHWVRRECDEGRKGVYEIYSLALVNWRDSLFSPLNKQVTNAVLKLTEKERNGETINTRLISGVVQSYVE
ParentalLGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRRVQVYLH
LGLNEDDAFAKGP.LT.YKESFESQFLADTERFYTRES.EFLQQNPV.EYMKKAEARLLEE.RRVQVYLH
RetrocopyLGLNEDDAFAKGPILTLYKESFESQFLADTERFYTRESIEFLQQNPVIEYMKKAEARLLEEKRRVQVYLH
ParentalESTQDELARKCEQVLIEKHLEIFHTEFQNLLDADKNEDLGRMYNLVSRIQDGLGELKKLLETHIHNQGLA
ESTQDELA.KCEQVLIEKHLE.FHTEFQNLLDA.K.EDLGRMYNLVSRIQDGLGELKKLLE.HIHNQGL.
RetrocopyESTQDELAKKCEQVLIEKHLELFHTEFQNLLDAHKTEDLGRMYNLVSRIQDGLGELKKLLEAHIHNQGLS
ParentalAIEKCGEAALNDPKMYVQTVLDVHKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQSSSKSPE
AI.KCGEAALNDPKMYVQ.VLDVHKKYNALV.SAF.NDAGFVAALDKACGRFINNNA.T..AQSSSKSPE
RetrocopyAIDKCGEAALNDPKMYVQMVLDVHKKYNALVTSAFDNDAGFVAALDKACGRFINNNAITRVAQSSSKSPE
ParentalLLARYCDSLLKKSSKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMIS
LLARYCDSLLKKSSKNPEEAELEDTLNQVM.VFKYI.DKDVF.KFYAKMLAKRLVH.NSASDDAEASMIS
RetrocopyLLARYCDSLLKKSSKNPEEAELEDTLNQVMIVFKYIDDKDVFHKFYAKMLAKRLVHHNSASDDAEASMIS
ParentalKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTFALPSELE
KLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTF.LPSELE
RetrocopyKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTFSLPSELE
ParentalRSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQ
RSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQAST.QMAIL.QYNT.DAYTVQQLTDSTQ
RetrocopyRSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTLQMAILFQYNTQDAYTVQQLTDSTQ
ParentalIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTH
IKMDIL.QVL.ILLKSKLLV.E.EN.N..E.ELKPDTLIKLYL.YKNKKLRVNINVPMKTEQKQEQETTH
RetrocopyIKMDILVQVLHILLKSKLLVMENENVN--ELELKPDTLIKLYLAYKNKKLRVNINVPMKTEQKQEQETTH
ParentalKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKD
K.IEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVP.IKKCIDILIEKEYLERVDGEKD
RetrocopyKIIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPMIKKCIDILIEKEYLERVDGEKD
ParentalTYSYLA
TYSYLA
RetrocopyTYSYLA

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






RNA-Seq - click to see more details

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Otolemur garnettii was not studied using ChIP-Seq data.

EST - click to see more details

Otolemur garnettii was not studied using EST data.

TSS - click to see more details

Otolemur garnettii was not studied using FANTOM5 data.

Lab - click to see more details

retro_ogar_3491 was not experimentally validated.

Retrocopy orthology:
Otolemur garnettii 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 5 parental genes, and 8 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000087361 retrocopy
retro_btau_32,
Myotis lucifugus ENSMLUG000000024791 retrocopy
retro_mluc_349,
Otolemur garnettii ENSOGAG000000012822 retrocopies
retro_ogar_2069, retro_ogar_2642,
Otolemur garnettii ENSOGAG000000050463 retrocopies
retro_ogar_1871, retro_ogar_2954, retro_ogar_804,
Otolemur garnettii ENSOGAG00000014715 1 retrocopy
retro_ogar_3491 ,


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