RetrogeneDB - Retrocopy retro_ogar

                        
>retro_ogar_1377
ATGATCTGCAGTGGAAAAAATGGGAAACTTCATCTTAAACAGATCGCGTATTACAAACGGACTGGGGAATATCACCCAAC

CACACTGCCAAGGGGGAGAAGTGGCATACAAAGAGCAGCAAAAAAATTTGTTTTCAAGGAATAAAAACTGTTTTATGTTG

GAAAAGACAGAAAACAAAATCGTTTGGTAATTGTGTCAGAGGAAGAAAAAAAGAAAGTGCTAAGAGAATGTCATGAAAAT

GACACTGAAGTTCATCATGGCATATTCAGAACCCTCACACCAGTGGAGTCCAGTTACTATTGGGCTTCTGTGACCAATGA

TGTCAAACAGTGGGTGTATGCTTGCCAGCATTGCCAAGTGGCAAAAAATACAGTCACACTAGCACCTAAACCACACCTCG

TGAAGGTGGAGAGCCCATGGAGTGTGGTCACTGTCGACCTGATGGGGCCTTTCCACACCAGCAGCAGCACAAGTCACATG

TGTGCAGTGATCATGATGGACTTGCTCACAAAATAGGTTGTGATTCTGCCTCTGTGTGATGTTTCAGCATCAGAGATTGC

AAAGGCCATTATCAATATGTTTTTCTTATATGGACCTCATCAGAAAATGATAATGAACCAAGGAGATGAATTCATTCAAC

AGATTAGTGCTGAGCTATATGGATTGTTTGGCAAGAAGCAAACTGTAATTTCTCACACCTCTGGAGCTGCCAACCCAGCT

GACAGCACACCCAGCACTATCAAGATGCTCCTGCCCAAACACTGCGCAGAGCCCCCAGACAACTGGGACGGCCACCTGCT

GGCCATTTCATTTGCCTTCAGTGTAATGCACTTGGAGCCTACTAAATATACACCATATTTTCAAATGTTTCATCGAAATC

CTTATGTGGTGGAGACTTCAGATAGTCTTCAGAAAGTGGATGGTGGTAATACAAGTATGTTTGCCAGAATTCTAGATGCT

GTTAAAGAAGCTGATGAAACAATGGCAAATAAGACAACGTCAGTGTGCCAGGTGGAGAACAACAATTTGGATGAACTATA

TAAAAGCAAGATCATTGTTAAGAAGAAACCAAAACAAATAAATCCATTTCACTTAAAAGTGGGGCATGAAGTTTTAAGAC

AAAGGAAAAATTGGTGGAAAGATGGTGGTTTCCAGTCTGAGTGGGTGGGTCCCTGTGTCATAGACTACATCACAGACAGT

GGCTGTGCTGTCCTGAGGGACAGCACTGGGGTGAGGCTGAAGAGGCCTATCAAGATGTCCTACCTGAAGCCCTGTGTGAG

AGAGGCTGGTGAACAAGACAATCTTTATCTCCTGCAAGGCTCAGTGGTGGCAGATCACAACTATATTGGGTTGCCTGAAA

CTCCAGCTGGAGTGTACCAAGCAGATATCCTGTGGAAGATGCAGCTGTTGGTATAGTTGATAAGGAACTGCTGAGGTCAA

GCAAAGATCGAGATCTCTTAGAATATAGAAATGCCAAAATCTCTCCACTGGTAGAAGATCATGGGACTCTTGAAAAACAG

ACTTTCAGTCTGTTGGACTCTTGAAACCAAGTTCTTGGGTACCTAAGT

ORF - retro_ogar_1377 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	86.26 %
Parental protein coverage:	100.0 %
Number of stop codons detected:	3
Number of frameshifts detected:	1

Retrocopy - Parental Gene Alignment:

                                ParentalMVRSGKNGDLHLKQIAYYKRTGEYHPTTLPSERSGIRRAAKKFVFKEKKLFYVGKDRKQNRLVIVSEEEK
M..SGKNG.LHLKQIAYYKRTGEYHPTTLP..RSGI.RAAKKFVFKE.KLFYVGKDRKQNRLVIVSEEEK
RetrocopyMICSGKNGKLHLKQIAYYKRTGEYHPTTLPRGRSGIQRAAKKFVFKE*KLFYVGKDRKQNRLVIVSEEEK
ParentalKKVLRECHENDAGAHHGISRTLTLVESSYYWTSVTNDVKQWVYACQHCQVAKNTVTLAPKAHLLKAEGPW
KKVLRECHEND...HHGI.RTLT.VESSYYW.SVTNDVKQWVYACQHCQVAKNTVTLAPK.HL.K.E.PW
RetrocopyKKVLRECHENDTEVHHGIFRTLTPVESSYYWASVTNDVKQWVYACQHCQVAKNTVTLAPKPHLVKVESPW
ParentalSVVTVDLTGPFHTSSR-SHVYAVIVTDLLTKWVMILPLCDVSASEIAKAIINLFFLYGPPQKMIMNQGDE
SVVTVDL.GPFHTSS..SH..AVI..DLLTK.V.ILPLCDVSASEIAKAIIN.FFLYGP.QKMIMNQGDE
RetrocopySVVTVDLMGPFHTSSSTSHMCAVIMMDLLTK*VVILPLCDVSASEIAKAIINMFFLYGPHQKMIMNQGDE
ParentalFIQQINAELYGLFGKKQTVISHTSGAVNPADSTPSAIKTLLSKHCAEHPDDWDDHLLAVSFAFNVTHLEP
FIQQI.AELYGLFGKKQTVISHTSGA.NPADSTPS.IK.LL.KHCAE.PD.WD.HLLA.SFAF.V.HLEP
RetrocopyFIQQISAELYGLFGKKQTVISHTSGAANPADSTPSTIKMLLPKHCAEPPDNWDGHLLAISFAFSVMHLEP
ParentalTKNTPYFQMFNRNPYMAEISDSLQEVDGGNTSMFTRILEAVKEADETVANKTPSVAQVENNNLDELNKSK
TK.TPYFQMF.RNPY..E.SDSLQ.VDGGNTSMF.RIL.AVKEADET.ANKT.SV.QVENNNLDEL.KSK
RetrocopyTKYTPYFQMFHRNPYVVETSDSLQKVDGGNTSMFARILDAVKEADETMANKTTSVCQVENNNLDELYKSK
ParentalIIIKKKPKQINPFHLKVGHEVLRQRKNWWKDGRFQSEWVGPCVIDYITDSGCAVLRDGSGARLKRPIKMS
II.KKKPKQINPFHLKVGHEVLRQRKNWWKDG.FQSEWVGPCVIDYITDSGCAVLRD..G.RLKRPIKMS
RetrocopyIIVKKKPKQINPFHLKVGHEVLRQRKNWWKDGGFQSEWVGPCVIDYITDSGCAVLRDSTGVRLKRPIKMS
ParentalHLKPYVREAGEHDSLYLLQGSVVADHDYIGLPETPAGAYPADIL-VEGAAAGLVDNELLTSSKDRDLLEY
.LKP.VREAGE.D.LYLLQGSVVADH.YIGLPETPAG.Y.ADIL.VE.AA.G.VD.ELL.SSKDRDLLEY
RetrocopyYLKPCVREAGEQDNLYLLQGSVVADHNYIGLPETPAGVYQADIL<VEDAAVGIVDKELLRSSKDRDLLEY
ParentalRNAKISPLIEDHGTLEKQTFSLLDSSNQVLEYLS
RNAKISPL.EDHGTLEKQTFSLLDS.NQVL.YLS
RetrocopyRNAKISPLVEDHGTLEKQTFSLLDS*NQVLGYLS

                            

                            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_1377 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
Bos taurus	ENSBTAG00000021471	1 retrocopy	retro_btau_598,
Otolemur garnettii	ENSOGAG00000008147	1 retrocopy	retro_ogar_1377 ,

	RetrogeneDB ID:	retro_ogar_1377
Retrocopy location	Organism:	*Bushbaby (Otolemur garnettii)*
	Coordinates:	GL873544.1:4759208..4760776(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	GIN1
	Ensembl ID:	ENSOGAG00000008147
	Aliases:	None
	Description:	gypsy retrotransposon integrase 1 [Source:HGNC Symbol;Acc:25959]

Parental	MVRSGKNGDLHLKQIAYYKRTGEYHPTTLPSERSGIRRAAKKFVFKEKKLFYVGKDRKQNRLVIVSEEEK
	M..SGKNG.LHLKQIAYYKRTGEYHPTTLP..RSGI.RAAKKFVFKE.KLFYVGKDRKQNRLVIVSEEEK
Retrocopy	MICSGKNGKLHLKQIAYYKRTGEYHPTTLPRGRSGIQRAAKKFVFKE*KLFYVGKDRKQNRLVIVSEEEK

Parental	KKVLRECHENDAGAHHGISRTLTLVESSYYWTSVTNDVKQWVYACQHCQVAKNTVTLAPKAHLLKAEGPW
	KKVLRECHEND...HHGI.RTLT.VESSYYW.SVTNDVKQWVYACQHCQVAKNTVTLAPK.HL.K.E.PW
Retrocopy	KKVLRECHENDTEVHHGIFRTLTPVESSYYWASVTNDVKQWVYACQHCQVAKNTVTLAPKPHLVKVESPW

Parental	SVVTVDLTGPFHTSSR-SHVYAVIVTDLLTKWVMILPLCDVSASEIAKAIINLFFLYGPPQKMIMNQGDE
	SVVTVDL.GPFHTSS..SH..AVI..DLLTK.V.ILPLCDVSASEIAKAIIN.FFLYGP.QKMIMNQGDE
Retrocopy	SVVTVDLMGPFHTSSSTSHMCAVIMMDLLTK*VVILPLCDVSASEIAKAIINMFFLYGPHQKMIMNQGDE

Parental	FIQQINAELYGLFGKKQTVISHTSGAVNPADSTPSAIKTLLSKHCAEHPDDWDDHLLAVSFAFNVTHLEP
	FIQQI.AELYGLFGKKQTVISHTSGA.NPADSTPS.IK.LL.KHCAE.PD.WD.HLLA.SFAF.V.HLEP
Retrocopy	FIQQISAELYGLFGKKQTVISHTSGAANPADSTPSTIKMLLPKHCAEPPDNWDGHLLAISFAFSVMHLEP

Parental	TKNTPYFQMFNRNPYMAEISDSLQEVDGGNTSMFTRILEAVKEADETVANKTPSVAQVENNNLDELNKSK
	TK.TPYFQMF.RNPY..E.SDSLQ.VDGGNTSMF.RIL.AVKEADET.ANKT.SV.QVENNNLDEL.KSK
Retrocopy	TKYTPYFQMFHRNPYVVETSDSLQKVDGGNTSMFARILDAVKEADETMANKTTSVCQVENNNLDELYKSK

Parental	IIIKKKPKQINPFHLKVGHEVLRQRKNWWKDGRFQSEWVGPCVIDYITDSGCAVLRDGSGARLKRPIKMS
	II.KKKPKQINPFHLKVGHEVLRQRKNWWKDG.FQSEWVGPCVIDYITDSGCAVLRD..G.RLKRPIKMS
Retrocopy	IIVKKKPKQINPFHLKVGHEVLRQRKNWWKDGGFQSEWVGPCVIDYITDSGCAVLRDSTGVRLKRPIKMS

Parental	HLKPYVREAGEHDSLYLLQGSVVADHDYIGLPETPAGAYPADIL-VEGAAAGLVDNELLTSSKDRDLLEY
	.LKP.VREAGE.D.LYLLQGSVVADH.YIGLPETPAG.Y.ADIL.VE.AA.G.VD.ELL.SSKDRDLLEY
Retrocopy	YLKPCVREAGEQDNLYLLQGSVVADHNYIGLPETPAGVYQADIL<VEDAAVGIVDKELLRSSKDRDLLEY

Parental	RNAKISPLIEDHGTLEKQTFSLLDSSNQVLEYLS
	RNAKISPL.EDHGTLEKQTFSLLDS.NQVL.YLS
Retrocopy	RNAKISPLVEDHGTLEKQTFSLLDS*NQVLGYLS

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

RetrogeneDB ID:

retro_ogar_1377