RetrogeneDB - Retrocopy retro_nleu

                        
>retro_nleu_3106
ATAAGGGAGATCGTGCACATCCAGGCCAGCCAGTGCGGCAACCAGATCGGGGCCAAGTTCTGGGAAGTCATCAGTGATGA

GCATGGCATCGACCCTAGTGGCAACTACGTGGGCGACTCGGACTTGCAGCTGGAGCGGATGAGTGTCTACTACAACGAGG

CCTCTTCTCACAAGTACGTGCCTCGGGCCATTCTGGTTGACCTGGAACCCGGAACCATGGACAGTGTCCGCTCAGGGGCC

TTCGGACATCTTTTCAGGCCTGACAATTTCATCTTTGGTCAGAGTGGGGCCGGCAACAACTGGGCCAAGGGTCACTACAC

GGAGGGTGTGGAGCTGGTGGATTCAGTCCTGGATGTCGTGCAGAAGGAGTGTGAAAACTGCGACTGCCTGCAGGGCTTCC

AGCTGACCCACTCACTGGGGGGCAGCACGGGCTCTGGCATGGGCACGCTGCTCATCAGCAAGGTGCGTGAGGAGTATTCC

GACCGCATCCTGAACACCTTCAGCGTCATGCCCTCGCCCAAGGTGTAAGACACGGTGGTGGAGCCCTACAATGCCGCGCT

GTCCATCCACCAGCTGGTGGAGAATACGGATGAGACCTACTGCAACGACAACGAGGCTGTCTACGACATCTGCTTCCGCA

CCCTCAAGCTGGCCACACCCACCTACGGGGACCTCAACCACTTGGTGTCGACCACCATGAGCAGGGTCACCACCTCCCTG

CGCTTCCCGGGCCAGCTCAACGCTGACCTGCGTAAGCTGGCCGTCAACATGGTGCCCTTCCCCCGTCTGCACTTCTTCAC

GCCCGGCTTCGCCCGCCTCACAGCCCGGGGCAGCCAGCAGTACCGGGCCCTGACCGTGCCCGAGCTCACCCAGCAGATGT

TTGATGCCAAGAACATGATGGCTGCCTGCAACCCACACCACGGCCACCACCTGATGGTGGCCACCGTGTTCCGGGGCCGC

ATGTCCATGAAGGAGGTGGACGAGCAGATGCTGGCCATCCAGAGCAAGAACAGCAGCTACTTCGTGGAGTGGATCCCCAA

CAATGTGAAGGTGGCCGTGTGACATCCCGCCCCGCGG

ORF - retro_nleu_3106 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	91.09 %
Parental protein coverage:	79.78 %
Number of stop codons detected:	2
Number of frameshifts detected:	0

Retrocopy - Parental Gene Alignment:

                                ParentalMREIVHIQAGQCGNQIGAKFWEVISDEHGIDPSGNYMGDSNLRLERINFYYNDASSHKYVPRAILVDLEP
.REIVHIQA.QCGNQIGAKFWEVISDEHGIDPSGNY.GDS.L.LER...YYN.ASSHKYVPRAILVDLEP
RetrocopyIREIVHIQASQCGNQIGAKFWEVISDEHGIDPSGNYVGDSDLQLERMSVYYNEASSHKYVPRAILVDLEP
ParentalGTMDSVRSGAFGHLFRPDNFIFGQSGAGNNWAKGHYTEGAELVDSVLDVVRKECENCDCLQGFQLTHSLG
GTMDSVRSGAFGHLFRPDNFIFGQSGAGNNWAKGHYTEG.ELVDSVLDVV.KECENCDCLQGFQLTHSLG
RetrocopyGTMDSVRSGAFGHLFRPDNFIFGQSGAGNNWAKGHYTEGVELVDSVLDVVQKECENCDCLQGFQLTHSLG
ParentalGGTGSGMGTLLISKVREEYPDRIMNTFSVVPSPKVSDTVVEPYNATLSIHQLVENTDETYCIDNEALYDI
G.TGSGMGTLLISKVREEY.DRI.NTFSV.PSPKV.DTVVEPYNA.LSIHQLVENTDETYC.DNEA.YDI
RetrocopyGSTGSGMGTLLISKVREEYSDRILNTFSVMPSPKV*DTVVEPYNAALSIHQLVENTDETYCNDNEAVYDI
ParentalCFRTLKLATPTYGDLNHLVSATMSGVTTSLRFPGQLNADLRKLAVNMVPFPRLHFFMPGFAPLTARGSQQ
CFRTLKLATPTYGDLNHLVS.TMS.VTTSLRFPGQLNADLRKLAVNMVPFPRLHFF.PGFA.LTARGSQQ
RetrocopyCFRTLKLATPTYGDLNHLVSTTMSRVTTSLRFPGQLNADLRKLAVNMVPFPRLHFFTPGFARLTARGSQQ
ParentalYRALTVPELTQQMFDAKNMMAACDPRHGRYLTVATVFRGRMSMKEVDEQMLAIQSKNSSYFVEWIPNNVK
YRALTVPELTQQMFDAKNMMAAC.P.HG..L.VATVFRGRMSMKEVDEQMLAIQSKNSSYFVEWIPNNVK
RetrocopyYRALTVPELTQQMFDAKNMMAACNPHHGHHLMVATVFRGRMSMKEVDEQMLAIQSKNSSYFVEWIPNNVK
ParentalVAVCDIPPR
VAV....PR
RetrocopyVAV*HPAPR

                            

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

                        

RNA-Seq - click to see more details

Nomascus leucogenys was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Nomascus leucogenys was not studied using ChIP-Seq data.

EST - click to see more details

Nomascus leucogenys was not studied using EST data.

TSS - click to see more details

Nomascus leucogenys was not studied using FANTOM5 data.

Lab - click to see more details

retro_nleu_3106 was not experimentally validated.

Retrocopy orthology:

Nomascus leucogenys 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000010530	1 retrocopy	retro_cjac_1144,
Homo sapiens	ENSG00000258947	1 retrocopy	retro_hsap_155,
Gorilla gorilla	ENSGGOG00000002192	1 retrocopy	retro_ggor_2364,
Nomascus leucogenys	ENSNLEG00000005348	1 retrocopy	retro_nleu_498,
Nomascus leucogenys	ENSNLEG00000015940	1 retrocopy	retro_nleu_3106 ,

	RetrogeneDB ID:	retro_nleu_3106
Retrocopy location	Organism:	*Gibbon (Nomascus leucogenys)*
	Coordinates:	GL398656.1:2177..3254(+)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	ENSG00000198211
	Ensembl ID:	ENSNLEG00000015940
	Aliases:	None
	Description:	None

Parental	MREIVHIQAGQCGNQIGAKFWEVISDEHGIDPSGNYMGDSNLRLERINFYYNDASSHKYVPRAILVDLEP
	.REIVHIQA.QCGNQIGAKFWEVISDEHGIDPSGNY.GDS.L.LER...YYN.ASSHKYVPRAILVDLEP
Retrocopy	IREIVHIQASQCGNQIGAKFWEVISDEHGIDPSGNYVGDSDLQLERMSVYYNEASSHKYVPRAILVDLEP

Parental	GTMDSVRSGAFGHLFRPDNFIFGQSGAGNNWAKGHYTEGAELVDSVLDVVRKECENCDCLQGFQLTHSLG
	GTMDSVRSGAFGHLFRPDNFIFGQSGAGNNWAKGHYTEG.ELVDSVLDVV.KECENCDCLQGFQLTHSLG
Retrocopy	GTMDSVRSGAFGHLFRPDNFIFGQSGAGNNWAKGHYTEGVELVDSVLDVVQKECENCDCLQGFQLTHSLG

Parental	GGTGSGMGTLLISKVREEYPDRIMNTFSVVPSPKVSDTVVEPYNATLSIHQLVENTDETYCIDNEALYDI
	G.TGSGMGTLLISKVREEY.DRI.NTFSV.PSPKV.DTVVEPYNA.LSIHQLVENTDETYC.DNEA.YDI
Retrocopy	GSTGSGMGTLLISKVREEYSDRILNTFSVMPSPKV*DTVVEPYNAALSIHQLVENTDETYCNDNEAVYDI

Parental	CFRTLKLATPTYGDLNHLVSATMSGVTTSLRFPGQLNADLRKLAVNMVPFPRLHFFMPGFAPLTARGSQQ
	CFRTLKLATPTYGDLNHLVS.TMS.VTTSLRFPGQLNADLRKLAVNMVPFPRLHFF.PGFA.LTARGSQQ
Retrocopy	CFRTLKLATPTYGDLNHLVSTTMSRVTTSLRFPGQLNADLRKLAVNMVPFPRLHFFTPGFARLTARGSQQ

Parental	YRALTVPELTQQMFDAKNMMAACDPRHGRYLTVATVFRGRMSMKEVDEQMLAIQSKNSSYFVEWIPNNVK
	YRALTVPELTQQMFDAKNMMAAC.P.HG..L.VATVFRGRMSMKEVDEQMLAIQSKNSSYFVEWIPNNVK
Retrocopy	YRALTVPELTQQMFDAKNMMAACNPHHGHHLMVATVFRGRMSMKEVDEQMLAIQSKNSSYFVEWIPNNVK

Parental	VAVCDIPPR
	VAV....PR
Retrocopy	VAV*HPAPR

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

RetrogeneDB ID:

retro_nleu_3106