RetrogeneDB ID:

retro_nleu_1223

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397285.1:19138826..19140759(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSNLEG00000006867
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:XRN2
Ensembl ID:ENSNLEG00000009991
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_1223
CTTAATGTTCTTCGTGCGTATCTGGAAAGAGAACTCACAATGGCCAGCCTACCATTCACATTCGATGTTGAGAGGAGCAT
TGATGACTGGGTTTTCATGTGCTTCTTTGTGGGAAATGACTTCCTCCCTCATTTGCCATCGGTAGAGATTAGGGAAAATG
CAATTGACCGTTTGGTCAACATATACAAAAATGTGGCACACAAAACTGGGGTTACCTTACTGACAGTGGTTATGTCAATC
TGCAAAGAGTACAGATGATCATGTTAGCAGTTGGTGAAGTTGAGGATAGCATTTTTAAAAAGAGAAAGGATGATGAGGGC
AGTTTTAGAAGATGACAGAAAGAAAAAAGAAAGAGAATGAAGAGAGATCAACCAACCTTCACTCCTAGTGGAATATTAAC
TCCTCATGCCTTGGGTTCAAGAAATTCACCAGGTTCTCAAGTAGCCAGTAATCCGAGACAAGCAGCCTATGAAATGAGGA
TGCAGAATAACTCTAGTCCTTCAATATCTCCTAATACGAGTTTCATATCTGATGGCTCCCCATCTCTAATGGGAGGAATT
AAGCGAAAAGCAGAAGACAGTGACAGTGAACCTGAGCCAGAGGATAACGTCAGGTTATGGGAAGCTGGCTGGAAGCAGCG
GTACTACAAGAACAAATTTGACGTGGATGCAGCTGATGAGAAATTCCGTCAGAAAGTTGTGCATTCGTACGTTGAAGGAC
TTTGCTGGGTTCTTAGATATTATTATCAGGGCTGTGCTTCCTGGAAGTGGTATTATCCATTTCATTATGCGCCATTTGCT
TCAGACTTTGAAGGCATTGCAGACGTGCCATCTGATTTTGAGAAGGGTACAAAACCGTTTAAACCACTGGAACAACTTAT
GGGAGTTTTTCCAGCTGCAAGTGGTAATTTTCTTCCTCCATCATGGCGGAAGCTCATGAGTGACCCTGATTCTAGTATAA
TTGACTTCCATCCTGAAGATTTTGCTATTGATTTGAATGGGAAGAAATATGCATGGCAAGGTGTTTCTCTCTTGCCATTC
ATGGGTGAGTGAAGGCTACGAGCTGCCCTAGAAGAGGTATACCCAGACTTCACTACAGAAGAGACCAGAAGAAACAGCCT
TGGAGGTGATGTCTTATTTGTGGGGAAACATCACCCACTCCATGACTTCATTTTAGAGCTGTACCAGACAGGTTCCACAG
AGCCAGTGGATGTACCCCTGAACTATGTCATGGGATTCAAGGAAAGTTTTCTCTGGATGAAGAAGCCATTCTTCCAGATC
AAATAGTATGTTCTCCTGTTCCTATGTTAAGGGATCTGACATAGAACACTGTAGTCAGTATTAATTTTAAAGACCCACAG
TTTGCTGAAGATTATATTTTTAAAGCTGTAATGCTTCCAGGAGCAAGAAAGCTAGCAGCAGTACTGAAACCTAGTGACTG
GGAAAAATCCAGCAACGGACAGCAGTGGAAGCCTCAGCTTGGCTTTAACTGTGACCGGAGGCCTGTACACCTGGATCAGG
CAGGCTTCAGGACTTTGGGCCATGTTATGCCAAGAGGCTCAGGAACTGGCATTTACAGCAATGCTGCACCACCACCTGCG
ACTTATCAGGGAAACTTATACAGGCCGCTTTTGAGAGGACAAGCCCAGATTCCAAAACTTATGTCAAATATGAGGCCCCA
GGATTCCTGGCAAGGTCCTCCTCCCCTTTTCCAGCAGCAAAGGTTTGACGGAGGCATTGGGGCTGAACCTCTGCTCCCAT
GGAAACGGATGCTGCAAACCCAGAATGCAGCCTTCCAGCCAAACCAGTACCAGATGCTAGCTGGGCCTGGTGGGTATCCA
CCCAGACGAGATGATCTTGGAGGGAGACAGGGATATCACAGAGAAGGAAGGAAATATCCTTTGCCACCACCCTCAGGAAG
ATACAATTGAAAT

ORF - retro_nleu_1223 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 92.58 %
Parental protein coverage: 67.89 %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalLNVLREYLERELTMASLPFTFDVERSIDDWVFMCFFVGNDFLPHLPSLEIRENAIDRLVNIYKNVVHKTG
LNVLR.YLERELTMASLPFTFDVERSIDDWVFMCFFVGNDFLPHLPS.EIRENAIDRLVNIYKNV.HKTG
RetrocopyLNVLRAYLERELTMASLPFTFDVERSIDDWVFMCFFVGNDFLPHLPSVEIRENAIDRLVNIYKNVAHKTG
Parental-GYLTESGYVNLQRVQMIMLAVGEVEDSIFKKRKDDEDSFRRRQKEKRKRMKRDQPAFTPSGILTPHALG
.GYLT.SGYVNLQRVQMIMLAVGEVEDSIFKKRKDDE.SF..............QP.FTPSGILTPHALG
Retrocopy<GYLTDSGYVNLQRVQMIMLAVGEVEDSIFKKRKDDEGSFXXXXXXXXXXXXXXQPTFTPSGILTPHALG
ParentalSRNSPGSQVASNPRQAAYEMRMQNNSSPSISPNTSFTSDGSPSPIGGIKRKAEDSDSEPEPEDNVRLWEA
SRNSPGSQVASNPRQAAYEMRMQNNSSPSISPNTSF.SDGSPS..GGIKRKAEDSDSEPEPEDNVRLWEA
RetrocopySRNSPGSQVASNPRQAAYEMRMQNNSSPSISPNTSFISDGSPSLMGGIKRKAEDSDSEPEPEDNVRLWEA
ParentalGWKQRYYKNKFDVDAADEKFRRKVVQSYVEGLCWVLRYYYQGCASWKWYYPFHYAPFASDFEGIADMPSD
GWKQRYYKNKFDVDAADEKFR.KVV.SYVEGLCWVLRYYYQGCASWKWYYPFHYAPFASDFEGIAD.PSD
RetrocopyGWKQRYYKNKFDVDAADEKFRQKVVHSYVEGLCWVLRYYYQGCASWKWYYPFHYAPFASDFEGIADVPSD
ParentalFEKGTKPFKPLEQLMGVFPAASGNFLPPSWRKLMSDPDSSIIDFYPEDFAIDLNGKKYAWQGVALLPFVD
FEKGTKPFKPLEQLMGVFPAASGNFLPPSWRKLMSDPDSSIIDF.PEDFAIDLNGKKYAWQGV.LLPF..
RetrocopyFEKGTKPFKPLEQLMGVFPAASGNFLPPSWRKLMSDPDSSIIDFHPEDFAIDLNGKKYAWQGVSLLPFMG
ParentalERRLRAALEEVYPDLTPEETRRNSLGGDVLFVGKHHPLHDFILELYQTGSTEPVDVP-PELCHGIQGRFS
E.RLRAALEEVYPD.T.EETRRNSLGGDVLFVGKHHPLHDFILELYQTGSTEPVDVP.PELCHGIQG.FS
RetrocopyE*RLRAALEEVYPDFTTEETRRNSLGGDVLFVGKHHPLHDFILELYQTGSTEPVDVP<PELCHGIQGKFS
ParentalLDEEAILPDQIVCSPVPMLRDLTQNTVVSINFKDPQFAEDYIFKAVMLPGARKPAAVLKPSDWEKSSNGR
LDEEAILPDQIVCSPVPMLRDLT.NTVVSINFKDPQFAEDYIFKAVMLPGARK.AAVLKPSDWEKSSNG.
RetrocopyLDEEAILPDQIVCSPVPMLRDLT*NTVVSINFKDPQFAEDYIFKAVMLPGARKLAAVLKPSDWEKSSNGQ
ParentalQWKPQLGFNRDRRPVHLDQAAFRTLGHVMPRGSGTGIYSNAAPPPATYQGNLYRPLLRGQAQIPKLMSNM
QWKPQLGFN.DRRPVHLDQA.FRTLGHVMPRGSGTGIYSNAAPPPATYQGNLYRPLLRGQAQIPKLMSNM
RetrocopyQWKPQLGFNCDRRPVHLDQAGFRTLGHVMPRGSGTGIYSNAAPPPATYQGNLYRPLLRGQAQIPKLMSNM
ParentalRPQDSWRGPPPLFQQQRFDRGVGAEPLLPWNRMLQTQNAAFQPNQYQMLAGPGGYPPRRDDRGGRQGYPR
RPQDSW.GPPPLFQQQRFD.G.GAEPLLPW.RMLQTQNAAFQPNQYQMLAGPGGYPPRRDD.GGRQGY.R
RetrocopyRPQDSWQGPPPLFQQQRFDGGIGAEPLLPWKRMLQTQNAAFQPNQYQMLAGPGGYPPRRDDLGGRQGYHR
ParentalEGRKYPLPPPSGRYNWN
EGRKYPLPPPSGRYN.N
RetrocopyEGRKYPLPPPSGRYN*N

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_1223 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 1 retrocopy.

Species Parental gene accession Retrocopies number
Nomascus leucogenys ENSNLEG00000009991 1 retrocopy
retro_nleu_1223 ,


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