RetrogeneDB ID:

retro_nleu_2771

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397424.1:1791768..1793673(-)
Located in intron of:ENSNLEG00000015475
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PAPOLA
Ensembl ID:ENSNLEG00000000625
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_2771
GGGGACATGCCCTGGCGGGGCGGGCACTGAAAGATGATGCCGTTTCCGGTGACAACCCAGGGACCACCGCAGCCGCCGCC
GCCCCCGAAGCGCTTGGGCATCTCCTCGCCTATCAGCCTAGCGGTTCCCAAGGAGACGGACTGCCTCCTCACCCAGAGGC
TAATAGAAACCCTCAGGCCCTTCGGGGTCTTTGAAGAGGAAGAGGAACTGCAGCGCAGGATTTTAGTTTTGGAAAAATTA
AATAATCTGGTAAAGGAATGGATACGTGAAATTAGTGAAAGCAAGAGTCTTCCCCAGTCTGTAATTGACAACGTTGGAGG
AAAGATTTTTACGTTTGGCTCTTACAGATTAGGAGTACATACGAAAGGCGCAGATATTGACGCCTTGTGCGTTGCACCAA
GGCATGTGGATCGAAGCGACTTTTTCACCTCATTCTATGCTAAACTGAAACTACAGGAGGAAGTAAAAGATTTAAGGGCT
GTTGAGGAGGCATTTGTGCCAGTTATCAAACTGTGTTTTGATGGGATAGAGATTGATATTTTATTTGCAAGATTAGCACT
ACAGACTATTCCAGAAGATTTGGACCTAAGAGATGACAGTCTACTTAAAAATCTAGACATTAGATGCATAAGAAGCCTTA
ATGGTTGCCGGGTAACCGATGAAATTTTACATCTAGTGCCAAACATTGACAACTTCAGGTTGACTCTGAGAGCCATCAAA
CTGTGGGCCAAGTGCCACAATATCTATTCCAATATATTATGTTTCCTCGGAGGTGTTTCCTGGGCCATGCTAGTAGCAAG
AACTTGTCAGCTTTATCCAAATGCAGTAGCGTCAACTCTTGTACGGAAATTCTTCTTGGTATTTTCGGAATGGGAATGGC
CAAACCCAGTGTTACTGAAAGAGCCTGAACAACGGAATCTTAATTTGCCTGTATGGGACCCAAGAGTAAATCCCAGTGAT
AGGTACCATCTTATGCCTATCATCACACCAGCATACCCACAGCAGAACTCCACATACAACGTGTCTATTTCAACCAGGAT
GGTCATGATTGAGGAGTTTAAACAGGGGCTTGCTATCACACATGAGATTTTGCTACGTAAGGCAGAGTGGTCCAAACTCT
TTGAAGCTCCAAGCTTCTTTCAAAAGTACAAGCATTATATTGTACTTCTGGCAAGTGCAACAACAGAAAAACAACATTTA
GAATGGGTGGGCTTGGTGGAATCAAAGATCCGAATCCTGGTTGGGAGCTTGGAGAAGAATGAATTTATTACACTGGCACA
TGTGAATCCACAGTCATTTCCAGCACCCAAAGAAAATACTGATATGGAAAAATTTCGTACAATGTGGGTTATTGGGTTAG
TGCTAAAAAAGCCAGAAAACTCTGAAATTCTCAGTATTGATCTCACCTATGATATCCAGTCTTTCACAGATACTGTTTAT
AGGCAAGCAGTGAATAGTAAGATGTTTGAGGTGGGTATGAAAATTACTGCAATGCATTTAAGAAGAAAGGAACTTCACCA
GCTGCTGCCTCATCATGTGCTTCAGGACAAGAAAGCACACTCAACAGAAGGTAGAAGATTGACAGATTTGAACGACACCA
GCTTTGACTTGTCTGCAGGCTGTGAAAACAGCATGTCTGTGCCTTCATCTACTAGCGCTGTGAAGACAGGCCCATTGATT
AGCAGTTCTCAGGGTAGAAACAGTCCTGCCCTGGCTGTAATGACAGCATCTGTGGCTAACATACAGGCTACTGAAATTTC
CTTGCAACAGGTGAATACCAGTGAAAGTTCAGGGGTTGCATTAAACGAAAGTATTCCTCACGCTGTCTCTCAACCTGCCA
TTTCTCCATCACCAAAGGCCATGGTCGCCAGAGTTGTTTCTTCAACATGTCTCATAAGCCATCCA

ORF - retro_nleu_2771 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.36 %
Parental protein coverage: 84.02 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGGSDWAVPAPETMPFPVTTQGSQQTQPPQKHYGITSPISLAAPKETDCVLTQKLIETLKPFGVFEEEEEL
G...W.......MPFPVTTQG..Q..PP.K..GI.SPISLA.PKETDC.LTQ.LIETL.PFGVFEEEEEL
RetrocopyGDMPWRGGH*KMMPFPVTTQGPPQPPPPPKRLGISSPISLAVPKETDCLLTQRLIETLRPFGVFEEEEEL
ParentalQRRILILGKLNNLVKEWIREISESKNLPQSVIENVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSD
QRRIL.L.KLNNLVKEWIREISESK.LPQSVI.NVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSD
RetrocopyQRRILVLEKLNNLVKEWIREISESKSLPQSVIDNVGGKIFTFGSYRLGVHTKGADIDALCVAPRHVDRSD
ParentalFFTSFYDKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIRCI
FFTSFY.KLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIRCI
RetrocopyFFTSFYAKLKLQEEVKDLRAVEEAFVPVIKLCFDGIEIDILFARLALQTIPEDLDLRDDSLLKNLDIRCI
ParentalRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKRHNIYSNILGFLGGVSWAMLVARTCQLYPNAIASTL
RSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAK.HNIYSNIL.FLGGVSWAMLVARTCQLYPNA.ASTL
RetrocopyRSLNGCRVTDEILHLVPNIDNFRLTLRAIKLWAKCHNIYSNILCFLGGVSWAMLVARTCQLYPNAVASTL
ParentalVHKFFLVFSKWEWPNPVLLKQPEECNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSVSTRMVMV
V.KFFLVFS.WEWPNPVLLK.PE..NLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVS.STRMVM.
RetrocopyVRKFFLVFSEWEWPNPVLLKEPEQRNLNLPVWDPRVNPSDRYHLMPIITPAYPQQNSTYNVSISTRMVMI
ParentalEEFKQGLAITDEILLSKAEWSKLFEAPNFFQKYKHYIVLLASAPTEKQRLEWVGLVESKIRILVGSLEKN
EEFKQGLAIT.EILL.KAEWSKLFEAP.FFQKYKHYIVLLASA.TEKQ.LEWVGLVESKIRILVGSLEKN
RetrocopyEEFKQGLAITHEILLRKAEWSKLFEAPSFFQKYKHYIVLLASATTEKQHLEWVGLVESKIRILVGSLEKN
ParentalEFITLAHVNPQSFPAPKENPDKEEFRTMWVIGLVFKKTENSENLSVDLTYDIQSFTDTVYRQAINSKMFE
EFITLAHVNPQSFPAPKEN.D.E.FRTMWVIGLV.KK.ENSE.LS.DLTYDIQSFTDTVYRQA.NSKMFE
RetrocopyEFITLAHVNPQSFPAPKENTDMEKFRTMWVIGLVLKKPENSEILSIDLTYDIQSFTDTVYRQAVNSKMFE
ParentalVDMKIAAMHVKRKQLHQLLPNHVLQKKKKXXXXXLKL-QCASNSLDLSMDSDNSMSVPSPTSATKTSPLN
V.MKI.AMH..RK.LHQLLP.HVLQ.KK........L......S.DLS....NSMSVPS.TSA.KT.PL.
RetrocopyVGMKITAMHLRRKELHQLLPHHVLQDKKAHSTEGRRLTDLNDTSFDLSAGCENSMSVPSSTSAVKTGPLI
ParentalSSGSSQGRNSPAPAVTAASVTNIQATEVSVPQVNSSESSGGTSSESIPQTATQPAISPPPKPTVSRVVSS
S..SSQGRNSPA.AV..ASV.NIQATE.S..QVN.SESSG....ESIP....QPAISP.PK..V.RVVSS
RetrocopyS--SSQGRNSPALAVMTASVANIQATEISLQQVNTSESSGVALNESIPHAVSQPAISPSPKAMVARVVSS
ParentalTRLVNPP
T.L...P
RetrocopyTCLISHP

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_2771 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 17 parental genes, and 19 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000141421 retrocopy
retro_amel_517,
Bos taurus ENSBTAG000000040541 retrocopy
retro_btau_1078,
Canis familiaris ENSCAFG000000177831 retrocopy
retro_cfam_1783,
Callithrix jacchus ENSCJAG000000065122 retrocopies
retro_cjac_1763, retro_cjac_543,
Homo sapiens ENSG000000900601 retrocopy
retro_hsap_30,
Gorilla gorilla ENSGGOG000000062871 retrocopy
retro_ggor_202,
Myotis lucifugus ENSMLUG000000109221 retrocopy
retro_mluc_1396,
Macaca mulatta ENSMMUG000000186101 retrocopy
retro_mmul_1675,
Monodelphis domestica ENSMODG000000128872 retrocopies
retro_mdom_1714, retro_mdom_1916,
Mustela putorius furoENSMPUG000000030541 retrocopy
retro_mputfur_1375,
Mus musculus ENSMUSG000000211111 retrocopy
retro_mmus_37,
Nomascus leucogenys ENSNLEG00000000625 1 retrocopy
retro_nleu_2771 ,
Otolemur garnettii ENSOGAG000000046111 retrocopy
retro_ogar_987,
Pongo abelii ENSPPYG000000061281 retrocopy
retro_pabe_3113,
Pan troglodytes ENSPTRG000000067041 retrocopy
retro_ptro_2595,
Pteropus vampyrus ENSPVAG000000139251 retrocopy
retro_pvam_360,
Vicugna pacos ENSVPAG000000064641 retrocopy
retro_vpac_378,


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