RetrogeneDB - Retrocopy retro_ogar

                        
>retro_ogar_833
AATCCTTACCTGTCCGAAGGCTACTTTGATGCTTCTGGGGTGCTGACTCCTGAGTTCTTACAATGCTTGAACAATAAGAT

TCATGAACTTCTTCAGCAAATGGAAAGAGGCCTAAAGTCAGCAGACCCTCTAGATGGCACTGTTTACACTGGCCGGGCAG

GTATTGCTGGACTTTATTTACACCTCTATGATGTATTTGGGGAGCCTGTCTACCTACAGATGGCAGGTGGCTCTGTAAAG

CAAAGTCTGAACTGTTTGACCAAGCGTTCCATCACCTTCCTTTGCGGGGATGCAGGCCCCTTGGCGGCAGCCGCTGTTCC

GTATAACAAGATGAACAATGAGAAGCAAGCAGAAGAATGCATCACAGGGCTAATTCACCTAAATAAGATCCATCCCCATG

ATCCAAATGAAACGCTCTATGGATGAATGGGATACGTCAATGCTCTTCTTTTTATCAATAAGAACTTTGGAGTGGAAAAG

ATTTCTGAAAGCCACATCCAGCAGATTTGTGGAACAGTTTTAACCTCTGGAGAAAACCTAGCTAGAAAGAGAAACTTCAC

AGCAAAGACTCCACTGAGGCATGAACAGTACCAGGAATATTATGTGGGAGCTGCTCATGGCCTGGCAGGAATTTATTACT

ACCTGATGCAGCCCAGCCTTCTAGTGAGCCAAGGAAAGTTACATGATTTAGTCAAGCCCAGTGTACACCATGTCTGCCAG

CTGAAATTCCCTTTCGGCAATTTTCCTCCATGTGTGGACGATACCCGAGAAGTGCTTGTCCACTGCTCTCATGGTGCCCC

CTGGGGTAATCTACGTGCTTACCCAGGCCTATAAGGTGTTCAAAAAGGAAAAATATCTCTATGATGCCTATCAGTGTGCC

AATGTGATCTGGCGATATGGCCTGCTGAAGAAGGGATATGGGTCCAGCCATGGCACTGCCGGGAATGCCTAAGCCTTCCT

GAAACTCTACAACCTCACCCAGGACATGAAGTACTGGTACAGGGCCTGTAAGTTTGCTGAATGGTGCTTAGAGTATGGAC

AGCACGGGGGCAGAACACTGGACACCCCTTTCTCCCTCTTTAAAGGAATGGCTGGAACAACATATTTCCTGGCTGACCTG

CTAGTCCCCACAAAAGCCAAATTCCCTGCGTTTGAACTA

ORF - retro_ogar_833 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	84.5 %
Parental protein coverage:	96.74 %
Number of stop codons detected:	2
Number of frameshifts detected:	1

Retrocopy - Parental Gene Alignment:

                                ParentalNKSLAEGYFDASGRLTPEFLQRLTNKIHELLQQMEKGLKSADPRDGTVYTGWAGIAVLYLHLYDIFGDPV
N..L.EGYFDASG.LTPEFLQ.L.NKIHELLQQME.GLKSADP.DGTVYTG.AGIA.LYLHLYD.FG.PV
RetrocopyNPYLSEGYFDASGVLTPEFLQCLNNKIHELLQQMERGLKSADPLDGTVYTGRAGIAGLYLHLYDVFGEPV
ParentalYLQMAHGYVKKSLNCLTKRSITFLCGDAGPLAAAAVLYNKMNNEKQAEECITRLIHLNKVDPHAPNEMLY
YLQMA.G.VK.SLNCLTKRSITFLCGDAGPLAAAAV.YNKMNNEKQAEECIT.LIHLNK..PH.PNE.LY
RetrocopyYLQMAGGSVKQSLNCLTKRSITFLCGDAGPLAAAAVPYNKMNNEKQAEECITGLIHLNKIHPHDPNETLY
ParentalGRMGYINALLFINKNFGVEKIPQSHIQQICETVLTSGENLAGKRNFTAKTPLIYEWYQEYYVGAAHGLAG
G.MGY.NALLFINKNFGVEKI..SHIQQIC.TVLTSGENLA.KRNFTAKTPL..E.YQEYYVGAAHGLAG
RetrocopyG*MGYVNALLFINKNFGVEKISESHIQQICGTVLTSGENLARKRNFTAKTPLRHEQYQEYYVGAAHGLAG
ParentalIYYYLMQPSLRVSQGKLHTLVKPSVDYICQLKFPSGNYPPCVDDTRDLLVHWCHGA-PGVIYMLTQAYKT
IYYYLMQPSL.VSQGKLH.LVKPSV...CQLKFP.GN.PPCVDDTR..LVH..HGA.PGVIY.LTQAYK.
RetrocopyIYYYLMQPSLLVSQGKLHDLVKPSVHHVCQLKFPFGNFPPCVDDTREVLVHCSHGA>PGVIYVLTQAYKV
ParentalFKEEKYLCDAYQCADVIWQYGLLKKGYGLCHGAAGNAYAFLNLYNLTQDVKYLYRACKFAEWCLEYGEHG
FK.EKYL.DAYQCA.VIW.YGLLKKGYG..HG.AGNA.AFL.LYNLTQD.KY.YRACKFAEWCLEYG.HG
RetrocopyFKKEKYLYDAYQCANVIWRYGLLKKGYGSSHGTAGNA*AFLKLYNLTQDMKYWYRACKFAEWCLEYGQHG
ParentalCRTPDTPFSLFEGMAGTIYFLADLLVPTKAKFPAFEL
.RT.DTPFSLF.GMAGT.YFLADLLVPTKAKFPAFEL
RetrocopyGRTLDTPFSLFKGMAGTTYFLADLLVPTKAKFPAFEL

                            

                            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_833 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
Equus caballus	ENSECAG00000009197	1 retrocopy	retro_ecab_944,
Otolemur garnettii	ENSOGAG00000005620	1 retrocopy	retro_ogar_833 ,

	RetrogeneDB ID:	retro_ogar_833
Retrocopy location	Organism:	*Bushbaby (Otolemur garnettii)*
	Coordinates:	GL873529.1:6216937..6218096(+)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	LANCL1
	Ensembl ID:	ENSOGAG00000005620
	Aliases:	None
	Description:	LanC lantibiotic synthetase component C-like 1 (bacterial) [Source:HGNC Symbol;Acc:6508]

Parental	NKSLAEGYFDASGRLTPEFLQRLTNKIHELLQQMEKGLKSADPRDGTVYTGWAGIAVLYLHLYDIFGDPV
	N..L.EGYFDASG.LTPEFLQ.L.NKIHELLQQME.GLKSADP.DGTVYTG.AGIA.LYLHLYD.FG.PV
Retrocopy	NPYLSEGYFDASGVLTPEFLQCLNNKIHELLQQMERGLKSADPLDGTVYTGRAGIAGLYLHLYDVFGEPV

Parental	YLQMAHGYVKKSLNCLTKRSITFLCGDAGPLAAAAVLYNKMNNEKQAEECITRLIHLNKVDPHAPNEMLY
	YLQMA.G.VK.SLNCLTKRSITFLCGDAGPLAAAAV.YNKMNNEKQAEECIT.LIHLNK..PH.PNE.LY
Retrocopy	YLQMAGGSVKQSLNCLTKRSITFLCGDAGPLAAAAVPYNKMNNEKQAEECITGLIHLNKIHPHDPNETLY

Parental	GRMGYINALLFINKNFGVEKIPQSHIQQICETVLTSGENLAGKRNFTAKTPLIYEWYQEYYVGAAHGLAG
	G.MGY.NALLFINKNFGVEKI..SHIQQIC.TVLTSGENLA.KRNFTAKTPL..E.YQEYYVGAAHGLAG
Retrocopy	G*MGYVNALLFINKNFGVEKISESHIQQICGTVLTSGENLARKRNFTAKTPLRHEQYQEYYVGAAHGLAG

Parental	IYYYLMQPSLRVSQGKLHTLVKPSVDYICQLKFPSGNYPPCVDDTRDLLVHWCHGA-PGVIYMLTQAYKT
	IYYYLMQPSL.VSQGKLH.LVKPSV...CQLKFP.GN.PPCVDDTR..LVH..HGA.PGVIY.LTQAYK.
Retrocopy	IYYYLMQPSLLVSQGKLHDLVKPSVHHVCQLKFPFGNFPPCVDDTREVLVHCSHGA>PGVIYVLTQAYKV

Parental	FKEEKYLCDAYQCADVIWQYGLLKKGYGLCHGAAGNAYAFLNLYNLTQDVKYLYRACKFAEWCLEYGEHG
	FK.EKYL.DAYQCA.VIW.YGLLKKGYG..HG.AGNA.AFL.LYNLTQD.KY.YRACKFAEWCLEYG.HG
Retrocopy	FKKEKYLYDAYQCANVIWRYGLLKKGYGSSHGTAGNA*AFLKLYNLTQDMKYWYRACKFAEWCLEYGQHG

Parental	CRTPDTPFSLFEGMAGTIYFLADLLVPTKAKFPAFEL
	.RT.DTPFSLF.GMAGT.YFLADLLVPTKAKFPAFEL
Retrocopy	GRTLDTPFSLFKGMAGTTYFLADLLVPTKAKFPAFEL

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

RetrogeneDB ID:

retro_ogar_833