RetrogeneDB ID:

retro_ogar_1485

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873549.1:6148481..6150406(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ACSL1
Ensembl ID:ENSOGAG00000001689
Aliases:None
Description:acyl-CoA synthetase long-chain family member 1 [Source:HGNC Symbol;Acc:3569]


Retrocopy-Parental alignment summary:






>retro_ogar_1485
ATGCAAGCCCACGAGTTGTTCCAGTATTTTCAAATGCCAGAGCTGGGTTGACTTCCGACAATACGTGTGCACTCTTCCAA
CCAACACACCTGTGGGCTTCGGGGCTTTTGCAGCACTCACCACTTTCTGGTACACCATGATACTCAAACCCCTGAAGCTG
CCATGTGACCTCTCCATGCAATCAGTGGAAGTGGCGGGTAGATAAAGTGCTCAAAGATCCACACTGCTCGACAGTGATGA
GCCCTTGGTATACTTCTGTGATGATGTCAGAACCTTGTATGAAGGTTTCCAGAGGGGTATACAGGTGTCAAATAATGGCC
TTTCTTTGGGCTCTTGGAATCCAAACCAGCCCTATGAATGGCTTTCATATAAACAGGTTGCAGACTTGTCAGAATGCGTA
GGCTCAGCGCTCATCCAGAAAGGCTTCAAGACTGCCCCAGACCAGTTCATTGGCATCTTTGCCCAAAATAGACTGGAGTA
GGTCATTATTGAGCAGGGATGCTTTGCCTACTCCATGGTGGTCATTCCCTTGTACAATACCCTGGGGACTGAAGCCATCA
CATACACAGTCAACAAAGCTGAACTTTCTCTGATTTTTGTTGACAAGCCAGAGAAGGCCAGACTCTTATTAGAGGGTATA
GAGAATAAGTTAACACCATGCCTCAAAAATCATAGTTCTCATGGACACCTTTGGTAGCAAGCTGGTGGAATGAGGCAAGA
AGTGTGGGGTGGAAGTTACCAGCATGAAGGCAATGGAGGACCTGGGAAGAGCCAACAGGCAGAAGCCCAAGCCTCCAGCT
CCTGAAGATCTTGCAGTAGTTTGTTTCACAAGTGGAACAACAGGCAACCCCAAAGGAGCGATGATCACTCATCAAAATGT
AGTGAGCGATTGTTTAGCTTTTGTGAAAATGACAGAGAATACAGTCATTCCTTCCCCAGACAATATTTCGATATCTTTCT
TGCCTCTGGCCCATATGTTTGAGAGAGTTGTAGACTGTGTAGTGCTGTGTCACGGAGCTAAAATCGGCTTTTTGCAAGGA
GATATCTGGTTGCTTATGGATGACCTAAAGGTGCTTCAGCCCACTATCTTTCCTGTGGTTCCAAGGCTGCTAAACCACTT
GTTTGATCGAATCTTTGGACAAACCAACACCACACTGAAGCAGTGGCTCTTGGACTTCGCCTCCAAGAGGAAGGAGGCCG
AGCTTTGCAGTGGCATTATCAGGAACAACAGCCTGTGGGACAAACTGACCTTCCACAAAATACAGTCAAGCCTAGGTGGA
AAAGTACGGCTAATGGTCACTGGAGCTGCCCCCGTGTCTGCCACTGTACTGACATTTCTGAGAGCAGCCCTCGGCTGTCA
GTTTTACAAAGGGTATGGACAGACTGAGTGCACTGCCGGCTGCGGGCTGACTGTCCCTAGGGACTAGACGGCAGGCCACG
TTGGTGCCCCAATGCCTTGCACCTTTATAAAACTTGTTGATGTGGAAGAAATGAATTGCATGGCTGCCAAAGGCAAGGGT
GAGGTGTGTGTGAAAGGGGCAAATGTATTTCAGGGCTACTTGAAGGACCCACCAAAGACAGCAGAAGCTTTGGACAAAGA
CGGCTGGTTGCACACAGAGGACATTGGAAAGTGGTTACCAGACGGCACCTTGAAGATCATCGACAGGAATAAGCACATAT
TCAAGCTGGCACAAAGAGAATATATAGCACCTGAAAAGATTGAAAATATCTACCTGCAAAGTGAACCTATCACTCAGGTG
TTTGCCCATGAAGAAAGCTAGCAGGCATTTCTCATAGCAATTGTGGTACTGGATGTTGAGACATTATCTTCCTGGGCCTG
AAAGAAAGGATTTGATGGGACCTTTGATGAATTGTGCCAAAATAAGGATGTCAAGAAACCCATCCTAGAAGATATGGTGA
GACTC

ORF - retro_ogar_1485 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.74 %
Parental protein coverage: 91.83 %
Number of stop codons detected: 6
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMQAHELFRYFRMPEL-VDFRQYVRTLPTNTLMGFGAFAALTTFWYATRPKALKPPCDLSMQSVEVAGGEG
MQAHELF.YF.MPEL.VDFRQYV.TLPTNT..GFGAFAALTTFWY....K.LK.PCDLSMQSVEVAG...
RetrocopyMQAHELFQYFQMPEL>VDFRQYVCTLPTNTPVGFGAFAALTTFWYTMILKPLKLPCDLSMQSVEVAGR*S
ParentalARRSTLLDSDEPLVYFYDDVRTLYEGFQRGIQVSNNGPCLGSRKPNQPYEWLSYKQVADLSECIGSALIQ
A.RSTLLDSDEPLVYF.DDVRTLYEGFQRGIQVSNNG..LGS..PNQPYEWLSYKQVADLSEC.GSALIQ
RetrocopyAQRSTLLDSDEPLVYFCDDVRTLYEGFQRGIQVSNNGLSLGSWNPNQPYEWLSYKQVADLSECVGSALIQ
ParentalKGFKTAPDQFIGIFAQNRPEWVIIEQGCFAYSMVVVPLYDTLGTEAITYIVNKAELSLIFVDKPEKARLL
KGFKTAPDQFIGIFAQNR.E.VIIEQGCFAYSMVV.PLY.TLGTEAITY.VNKAELSLIFVDKPEKARLL
RetrocopyKGFKTAPDQFIGIFAQNRLE*VIIEQGCFAYSMVVIPLYNTLGTEAITYTVNKAELSLIFVDKPEKARLL
ParentalLEGIENKLTPCLK-IIVLMDTFGSELVERGKKCGVEVTSMKAMEDLGRANRRKPKPPAPEDLAVVCFTSG
LEGIENKLTPCLK.IIVLMDTFGS.LVE.GKKCGVEVTSMKAMEDLGRANR.KPKPPAPEDLAVVCFTSG
RetrocopyLEGIENKLTPCLK>IIVLMDTFGSKLVE*GKKCGVEVTSMKAMEDLGRANRQKPKPPAPEDLAVVCFTSG
ParentalTTGNPKGAMITHQNVVSDCSAFVKMTENTVIPSPDDILISFLPLAHMFERVVECVMLCHGAKIGFFQGDI
TTGNPKGAMITHQNVVSDC.AFVKMTENTVIPSPD.I.ISFLPLAHMFERVV.CV.LCHGAKIGF.QGDI
RetrocopyTTGNPKGAMITHQNVVSDCLAFVKMTENTVIPSPDNISISFLPLAHMFERVVDCVVLCHGAKIGFLQGDI
ParentalRLLMDDLKVLQPTIFPVVPRLLNRMFDRIFGQANTTLKRWLLDFASKRKEAELRSGIIRNNSLWDKLIFH
.LLMDDLKVLQPTIFPVVPRLLN..FDRIFGQ.NTTLK.WLLDFASKRKEAEL.SGIIRNNSLWDKL.FH
RetrocopyWLLMDDLKVLQPTIFPVVPRLLNHLFDRIFGQTNTTLKQWLLDFASKRKEAELCSGIIRNNSLWDKLTFH
ParentalKIQSSLGGKVRLMVTGAAPVSATVLTFLRAALGCQFYEGYGQTECTAGCCLTVPGDWTAGHVGAPMPCNF
KIQSSLGGKVRLMVTGAAPVSATVLTFLRAALGCQFY.GYGQTECTAGC.LTVP.D.TAGHVGAPMPC.F
RetrocopyKIQSSLGGKVRLMVTGAAPVSATVLTFLRAALGCQFYKGYGQTECTAGCGLTVPRD*TAGHVGAPMPCTF
ParentalIKLVDVEEMNYMAAKGEGEVCVKGANVFQGYLKDPAKTAEALDKDGWLHTGDIGKWLPNGTLKIIDRKKH
IKLVDVEEMN.MAAKG.GEVCVKGANVFQGYLKDP.KTAEALDKDGWLHT.DIGKWLP.GTLKIIDR.KH
RetrocopyIKLVDVEEMNCMAAKGKGEVCVKGANVFQGYLKDPPKTAEALDKDGWLHTEDIGKWLPDGTLKIIDRNKH
ParentalIFKLAQGEYIAPEKIENIYLRSEPIAQVFVHGESLQAFLIAIVVPDVETLSSWAQKKGFDGTFDELCRNK
IFKLAQ.EYIAPEKIENIYL.SEPI.QVF.H.ES.QAFLIAIVV.DVETLSSWA.KKGFDGTFDELC.NK
RetrocopyIFKLAQREYIAPEKIENIYLQSEPITQVFAHEES*QAFLIAIVVLDVETLSSWA*KKGFDGTFDELCQNK
ParentalDLKKAILEDMVRL
D.KK.ILEDMVRL
RetrocopyDVKKPILEDMVRL

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_1485 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 2 parental genes, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Myotis lucifugus ENSMLUG000000063411 retrocopy
retro_mluc_74,
Otolemur garnettii ENSOGAG00000001689 1 retrocopy
retro_ogar_1485 ,




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