RetrogeneDB - Retrocopy retro_nleu

                        
>retro_nleu_2861
CTACAAAAACAGTTGGATATAGAACTTAAAGTAAAACAAGATGCAGAGAATATGATACAGATGTATTCAAATGGATCTTC

AAAGGATCAGAAACTCCATGGTATAGCTCAGCAACTGCTCCAGGACAGCAAGACAAAAATAGAAGTCATACCAATGCAGA

TTCTTCAGGCAGTCCAGACTAATGAATTGGCTTTTGATAATACAAAACCTGTGATAAGTCCTCTTGAACTTCGGATAGAA

GAATTAAGGCATCATTTTAGGATACAGTTTGCAATAGCAGAAGGTGCAAAGAATGTAATGAAATTACTTGGCTCAGGAAA

AGTAACAGACAGAAAAGCACTTTCAGAAGCTCAAGCAAGATTTAATGAATCAAGTCAGAAGTTGGACCTTTTAAATTATT

CATTAGAGCAAAGATTAAATGAACTCCCCAAGAATCATCCCAAAAGCAGTAGTATTATTGAAGAACTTTCACTTGTTGCC

GCATCACCAACACTAAGTCCAGGTCAAAGTATGATATCTACACAAAATCAATATAGTACACCATCCAAACCAGCAGCATT

AACAGGGACTTTGGAAGTGCGTCTTATCGGCTGCCAAGATATCCTAGAGAATGTCCCTGGACGGTCAAAAGCAACATCAG

TTGCACTGCCTGGTTGGAGTCCAAGTGAAACCAGATCATGTTTCATGAGCAAAACGAGTAAAAGTAAAAGCAGAAGTAGT

GGAAATCTTCTAAAAACCGATGACTTGTCCAATGATGTCTGTGCTGTTTTGAAGCTCGATAATACTGTGGTTGGCCAAAC

TAGCTGGAAACCTATTTCCAATCAGTCATGGGACCAGAAGTTTACACTGGAACTGGACAGGTCACATGAACTGGAAATTT

CAGTTTATTGGCGTGATTGGCGGTCTCTCTGTGCTGTAAAATTTCTGAGGTTAGAAGATTTTTTAGACAACCAACAGCAT

GGCATGTGTCTCTATTTGGAACCACAGGGTACTTTATTTGCAGAGGTTACCTTTTTTAATCCAGTTATTGAAAGAAGACC

AAAACTTCAAAAACAAAAGAAAATTTTTTCAAAGCAACAAGGCAAAAGATTTCTCAGAGTTCCTCAAATGAATATTATTA

TTGCCATTTGGAGAAGGCTAGTAAGAAGAGCTATTCCTACAGTAAATCATTCTGGCACCTTCAGCCCTCAAGCTCCTGTG

CCTACTACAGTGCCAGTGGTTGATGACATCCCTGAACTAACACCTCCAGCTAGTGATTCTACAGCAGTGAAACTGGACTT

TGATCTTGAGCCTGAACCTCCTCCAGCCCCACCACGAGCTTCTTCCCTTGGAGAAATAGATGAATCTTCTGAATTAAGAG

TTTTGGATACACCAGGACAGGATTCAGAGACTGCTTTTGATATTGAGAATGACAGAAATAATATACTTCCAAAATCTCAA

TCTGAATACAAGCCTGATACTCCTCAGTCAGGCCTAGAATATAGTGGTATTCAAGAACTTGAGGATAGATCTCAGCAAAG

GTTTCAGATTAATCTACAAGATTTCAGGTGTTATGCTGTCTTGGGAAGAGGACAATTTGGAAAGGTGCTTTTAGCTGAAT

ATAAACACACAAATGAGATGTTTGCTATAAAAGCCTTAAAGAAAGGAGATATTGTGGCTCGAGATGAAGTAGACATCCTG

ATGCGTGAAAAAAGAATTTTCGAAACTGTGAATAGTGTAAGGCATCCCTTTTTGATGAACCTTTTTGCATGTTTCCAAAC

CAAAGAGCATGTTTGCTTTGTAATGGAATATGCTGCTGGTGGGGACCTAACGATGCACGTTTGTACTGATGTCTTTTCTC

AACCAAGAGCTGTATTTTATGCTGCTTGTGTAGTTCTTGGGTTGCAGTATTTACATGAACACAAAATTGTTCATAGAGAT

TTGAAATTGGAAAACTTATTGCTAGATACAGAGGGCTTTGTGAAAATTGCTGATTTTGGTCTTTGCAAAGAAGGAATGGG

ATATGGAGATAGAACAAGCACATTCTGTGGCACTCCTCTATATCTTGCCCCAGAAGTATTAACAGAAACTTCTTATACAA

GGGCTGTAGATTGGTGGGCCCTTGGCATGCTTATATATGAAATGCTTGTTGGTGACTCTCCCTTTTTTGGTGTGGTTGAA

GAGAAAGTTTATGACAATATTGTAAATGGTGAAGTAAGGTATCCAAGGTTCTTATCTACAGTAGCCATTTCTATAATGAG

AAGTCTGTTAAGAAGAAATCCTGAGCAGCGCCTTGGGGCTACTGAGAAAGATGCAGAGGATGTAAAAGAGCACCCATTTT

TCTGGCTAATTGATTGGAGCGCTCTGATGGACAAAAAAGTAAAGCCACCATTTATACCTACCATAAGAGGACGAGAAGAT

GTTAGTCATTTCGATGATGAATTTACCTCAGAAGCACCTATTCTGACTCCACCTCGAGAACGAAGGATACTTTCGGAAGA

GGAGCAGGAAATGTTCAGAGATTTTGACTACACTGCTGATTGGTGT

ORF - retro_nleu_2861 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	91.47 %
Parental protein coverage:	85.77 %
Number of stop codons detected:	0
Number of frameshifts detected:	0

Retrocopy - Parental Gene Alignment:

                                ParentalLQKQLDIELKVKQGAENMIQMYSNGSSKDRKLHGTAQQLLQDSKTKIEVIRMQILQAVQTNELAFDNAKP
LQKQLDIELKVKQ.AENMIQMYSNGSSKD.KLHG.AQQLLQDSKTKIEVI.MQILQAVQTNELAFDN.KP
RetrocopyLQKQLDIELKVKQDAENMIQMYSNGSSKDQKLHGIAQQLLQDSKTKIEVIPMQILQAVQTNELAFDNTKP
ParentalVISPLELRMEELRHHFRIEFAVAEGAKNVMKLLGSGKVTDRKALSEAQARFNESSQKLDLLKYSLEQRLN
VISPLELR.EELRHHFRI.FA.AEGAKNVMKLLGSGKVTDRKALSEAQARFNESSQKLDLL.YSLEQRLN
RetrocopyVISPLELRIEELRHHFRIQFAIAEGAKNVMKLLGSGKVTDRKALSEAQARFNESSQKLDLLNYSLEQRLN
ParentalELPKNHPKSSIIIEELSLVAASPTLSPRQSMISTQNQYSTLSKPAALTGILEVRLMGCQDILENVPGRSK
ELPKNHPKSS.IIEELSLVAASPTLSP.QSMISTQNQYST.SKPAALTG.LEVRL.GCQDILENVPGRSK
RetrocopyELPKNHPKSSSIIEELSLVAASPTLSPGQSMISTQNQYSTPSKPAALTGTLEVRLIGCQDILENVPGRSK
ParentalATSVALPGWSPSETRSSFMSRTSKSKSGSSRNLLKTDDLSNDVCAVLKLDNTVVGQTSWKPISNQSWDQK
ATSVALPGWSPSETRS.FMS.TSKSKS.SS.NLLKTDDLSNDVCAVLKLDNTVVGQTSWKPISNQSWDQK
RetrocopyATSVALPGWSPSETRSCFMSKTSKSKSRSSGNLLKTDDLSNDVCAVLKLDNTVVGQTSWKPISNQSWDQK
ParentalFTLELDRSRELEISVYWRDWRSLCAVKFLRLEDFLDNQRHGMCLYLEPQGTLFAEVTFFNPVIERRPKLQ
FTLELDRS.ELEISVYWRDWRSLCAVKFLRLEDFLDNQ.HGMCLYLEPQGTLFAEVTFFNPVIERRPKLQ
RetrocopyFTLELDRSHELEISVYWRDWRSLCAVKFLRLEDFLDNQQHGMCLYLEPQGTLFAEVTFFNPVIERRPKLQ
ParentalRQKKIFSKQQGKTFLRAPQMNINIATWGRLVRRAIPTVNHSGTFSPQAPVPTTVPVVDVRIPELAPPASD
.QKKIFSKQQGK.FLR.PQMNI.IA.W.RLVRRAIPTVNHSGTFSPQAPVPTTVPVVD..IPEL.PPASD
RetrocopyKQKKIFSKQQGKRFLRVPQMNIIIAIWRRLVRRAIPTVNHSGTFSPQAPVPTTVPVVD-DIPELTPPASD
ParentalSTVTKLDFDLEPEPPPAPPRVSSLGEIDESSELRLLDAHDGDSETAFDIENDRNSILPKSQSEYKPDTPQ
ST..KLDFDLEPEPPPAPPR.SSLGEIDESSELR.LD....DSETAFDIENDRN.ILPKSQSEYKPDTPQ
RetrocopySTAVKLDFDLEPEPPPAPPRASSLGEIDESSELRVLDTPGQDSETAFDIENDRNNILPKSQSEYKPDTPQ
ParentalSGLEYSGIQELEDRSSQQRFQFNLQDFRCCAVLGRGHFGKVLLAEYKHTNEMFAIKALKKGDIVARDEVD
SGLEYSGIQELEDR.SQQRFQ.NLQDFRC.AVLGRG.FGKVLLAEYKHTNEMFAIKALKKGDIVARDEVD
RetrocopySGLEYSGIQELEDR-SQQRFQINLQDFRCYAVLGRGQFGKVLLAEYKHTNEMFAIKALKKGDIVARDEVD
ParentalSLMCEKRIFETVNSVRHPFLVNLFACFQTKEHVCFVMEYAAGGDLMMHIHTDVFSEPRAVFYAACVVLGL
.LM.EKRIFETVNSVRHPFL.NLFACFQTKEHVCFVMEYAAGGDL.MH..TDVFS.PRAVFYAACVVLGL
RetrocopyILMREKRIFETVNSVRHPFLMNLFACFQTKEHVCFVMEYAAGGDLTMHVCTDVFSQPRAVFYAACVVLGL
ParentalQYLHEHKIAHRDLKLENLLLDTEGFVKIADFGLCKEGMGYRDRTSTFCGTPLYLAPEVITEISYTRAVDW
QYLHEHKI.HRDLKLENLLLDTEGFVKIADFGLCKEGMGY.DRTSTFCGTPLYLAPEV.TE.SYTRAVDW
RetrocopyQYLHEHKIVHRDLKLENLLLDTEGFVKIADFGLCKEGMGYGDRTSTFCGTPLYLAPEVLTETSYTRAVDW
ParentalWGLGVLIYQMLVGDYPFRGGDEEKLFDSIVNDEVRYPRFLSTEAISIMRRLLRRNPKRRLGASKKDAEDV
W.LG.LIY.MLVGD.PF.G..EEK..D.IVN.EVRYPRFLST.AISIMR.LLRRNP..RLGA..KDAEDV
RetrocopyWALGMLIYEMLVGDSPFFGVVEEKVYDNIVNGEVRYPRFLSTVAISIMRSLLRRNPEQRLGATEKDAEDV
ParentalKKHPFFRLIDWSALMDKKVKPPFIPTIRGREDVSHFDDEFTSEAPILTPPRERRILSEEEQEMFRDFDYT
K.HPFF.LIDWSALMDKKVKPPFIPTIRGREDVSHFDDEFTSEAPILTPPRERRILSEEEQEMFRDFDYT
RetrocopyKEHPFFWLIDWSALMDKKVKPPFIPTIRGREDVSHFDDEFTSEAPILTPPRERRILSEEEQEMFRDFDYT
ParentalADWC
ADWC
RetrocopyADWC

                            

                            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_2861 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 1 parental gene, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Nomascus leucogenys	ENSNLEG00000010197	4 retrocopies	retro_nleu_1230, retro_nleu_2252, retro_nleu_2861 , retro_nleu_3074,

	RetrogeneDB ID:	retro_nleu_2861
Retrocopy location	Organism:	*Gibbon (Nomascus leucogenys)*
	Coordinates:	GL397455.1:192367..194893(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	ENSNLEG00000007830
	Aliases:	None
	Status:	KNOWN_PSEUDOGENE
Parental gene information	Parental gene summary:
	Parental gene symbol:	PKN2
	Ensembl ID:	ENSNLEG00000010197
	Aliases:	None
	Description:	None

Parental	LQKQLDIELKVKQGAENMIQMYSNGSSKDRKLHGTAQQLLQDSKTKIEVIRMQILQAVQTNELAFDNAKP
	LQKQLDIELKVKQ.AENMIQMYSNGSSKD.KLHG.AQQLLQDSKTKIEVI.MQILQAVQTNELAFDN.KP
Retrocopy	LQKQLDIELKVKQDAENMIQMYSNGSSKDQKLHGIAQQLLQDSKTKIEVIPMQILQAVQTNELAFDNTKP

Parental	VISPLELRMEELRHHFRIEFAVAEGAKNVMKLLGSGKVTDRKALSEAQARFNESSQKLDLLKYSLEQRLN
	VISPLELR.EELRHHFRI.FA.AEGAKNVMKLLGSGKVTDRKALSEAQARFNESSQKLDLL.YSLEQRLN
Retrocopy	VISPLELRIEELRHHFRIQFAIAEGAKNVMKLLGSGKVTDRKALSEAQARFNESSQKLDLLNYSLEQRLN

Parental	ELPKNHPKSSIIIEELSLVAASPTLSPRQSMISTQNQYSTLSKPAALTGILEVRLMGCQDILENVPGRSK
	ELPKNHPKSS.IIEELSLVAASPTLSP.QSMISTQNQYST.SKPAALTG.LEVRL.GCQDILENVPGRSK
Retrocopy	ELPKNHPKSSSIIEELSLVAASPTLSPGQSMISTQNQYSTPSKPAALTGTLEVRLIGCQDILENVPGRSK

Parental	ATSVALPGWSPSETRSSFMSRTSKSKSGSSRNLLKTDDLSNDVCAVLKLDNTVVGQTSWKPISNQSWDQK
	ATSVALPGWSPSETRS.FMS.TSKSKS.SS.NLLKTDDLSNDVCAVLKLDNTVVGQTSWKPISNQSWDQK
Retrocopy	ATSVALPGWSPSETRSCFMSKTSKSKSRSSGNLLKTDDLSNDVCAVLKLDNTVVGQTSWKPISNQSWDQK

Parental	FTLELDRSRELEISVYWRDWRSLCAVKFLRLEDFLDNQRHGMCLYLEPQGTLFAEVTFFNPVIERRPKLQ
	FTLELDRS.ELEISVYWRDWRSLCAVKFLRLEDFLDNQ.HGMCLYLEPQGTLFAEVTFFNPVIERRPKLQ
Retrocopy	FTLELDRSHELEISVYWRDWRSLCAVKFLRLEDFLDNQQHGMCLYLEPQGTLFAEVTFFNPVIERRPKLQ

Parental	RQKKIFSKQQGKTFLRAPQMNINIATWGRLVRRAIPTVNHSGTFSPQAPVPTTVPVVDVRIPELAPPASD
	.QKKIFSKQQGK.FLR.PQMNI.IA.W.RLVRRAIPTVNHSGTFSPQAPVPTTVPVVD..IPEL.PPASD
Retrocopy	KQKKIFSKQQGKRFLRVPQMNIIIAIWRRLVRRAIPTVNHSGTFSPQAPVPTTVPVVD-DIPELTPPASD

Parental	STVTKLDFDLEPEPPPAPPRVSSLGEIDESSELRLLDAHDGDSETAFDIENDRNSILPKSQSEYKPDTPQ
	ST..KLDFDLEPEPPPAPPR.SSLGEIDESSELR.LD....DSETAFDIENDRN.ILPKSQSEYKPDTPQ
Retrocopy	STAVKLDFDLEPEPPPAPPRASSLGEIDESSELRVLDTPGQDSETAFDIENDRNNILPKSQSEYKPDTPQ

Parental	SGLEYSGIQELEDRSSQQRFQFNLQDFRCCAVLGRGHFGKVLLAEYKHTNEMFAIKALKKGDIVARDEVD
	SGLEYSGIQELEDR.SQQRFQ.NLQDFRC.AVLGRG.FGKVLLAEYKHTNEMFAIKALKKGDIVARDEVD
Retrocopy	SGLEYSGIQELEDR-SQQRFQINLQDFRCYAVLGRGQFGKVLLAEYKHTNEMFAIKALKKGDIVARDEVD

Parental	SLMCEKRIFETVNSVRHPFLVNLFACFQTKEHVCFVMEYAAGGDLMMHIHTDVFSEPRAVFYAACVVLGL
	.LM.EKRIFETVNSVRHPFL.NLFACFQTKEHVCFVMEYAAGGDL.MH..TDVFS.PRAVFYAACVVLGL
Retrocopy	ILMREKRIFETVNSVRHPFLMNLFACFQTKEHVCFVMEYAAGGDLTMHVCTDVFSQPRAVFYAACVVLGL

Parental	QYLHEHKIAHRDLKLENLLLDTEGFVKIADFGLCKEGMGYRDRTSTFCGTPLYLAPEVITEISYTRAVDW
	QYLHEHKI.HRDLKLENLLLDTEGFVKIADFGLCKEGMGY.DRTSTFCGTPLYLAPEV.TE.SYTRAVDW
Retrocopy	QYLHEHKIVHRDLKLENLLLDTEGFVKIADFGLCKEGMGYGDRTSTFCGTPLYLAPEVLTETSYTRAVDW

Parental	WGLGVLIYQMLVGDYPFRGGDEEKLFDSIVNDEVRYPRFLSTEAISIMRRLLRRNPKRRLGASKKDAEDV
	W.LG.LIY.MLVGD.PF.G..EEK..D.IVN.EVRYPRFLST.AISIMR.LLRRNP..RLGA..KDAEDV
Retrocopy	WALGMLIYEMLVGDSPFFGVVEEKVYDNIVNGEVRYPRFLSTVAISIMRSLLRRNPEQRLGATEKDAEDV

Parental	KKHPFFRLIDWSALMDKKVKPPFIPTIRGREDVSHFDDEFTSEAPILTPPRERRILSEEEQEMFRDFDYT
	K.HPFF.LIDWSALMDKKVKPPFIPTIRGREDVSHFDDEFTSEAPILTPPRERRILSEEEQEMFRDFDYT
Retrocopy	KEHPFFWLIDWSALMDKKVKPPFIPTIRGREDVSHFDDEFTSEAPILTPPRERRILSEEEQEMFRDFDYT

Parental	ADWC
	ADWC
Retrocopy	ADWC

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

RetrogeneDB ID:

retro_nleu_2861