RetrogeneDB ID:

retro_nleu_120

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397308.1:11177159..11179130(-)
Located in intron of:ENSNLEG00000003760
Retrocopy
information
Ensembl ID:ENSNLEG00000003770
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:CHM
Ensembl ID:ENSNLEG00000002762
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_120
ATGGCGGACAATCTTCCCACAGAGTTTGATGTGGTTATAATAGGGACAGGTTTGCCCGAATCCATCCTTGCAGCTGCATG
TTCAAGAAGTGGTCAGAGGGTTCTGCATATTGATTCAAGAAGTTACTATGGAGGAAACTGGGCTAGTTTCAGCTTTTCAG
GATTGCTATCCTGGTTGAAAGAGTATCAGCAAAACAATGACATTGGGGAAGAAAGTACTGTTGCATGGCAGGATCTGATC
CATGAAACAGAAGAAGCCATCACTCTTCACAAGAAGGATGAAACTATTCAACACACAGAAGCTTTTTGCTACGCCAGTCA
GGATATGGAGGACAACATTGAAGAGATTGGTGCTCTGCAGAAAAATCCTTCTTCGGGGGTGTCTAATACCTTCACTGAAG
TTCTGGATTCTGCATTGCCCGAAGAAAGCCAGTCATCATATTTTAATAGTGACGAAATGCCTGCCAAACACACTCGGAAA
AGTGATACAGAGATTTCACTAGAAGTAACTGATGTAGAGGAATCAGTGGAGAAGGAAAAGTATTGTGGAGATAAAACTTG
TATGCACACAGTTTCAGATAAAGATGGAGATAAAGATGAAAGCAAATCTACAGTAGAAGATAATGCCAATGAACCAGTTA
GAAATAGGATTACTTACTCTCAAATAGTTAAAGAAGGCAGGAGGTTTAATATTGATTTGGTATCAAAACTGCTGTATTCT
CAAGGATTGCTAATTGATCTTTTAATCAAATCCGATGTTAGTCGTTATGTAGAATTTAAAAATGTCACTAGGATTCTTGC
ATTTCGGGAAGGAAAGGTAGAACAAGTGCCTTGTTCCAGAGCAGATGTCTTTAATAGCAAGGAACTCACCATGGTTGAAA
AGAGGATGCTAATGAAATTTCTCACATTTTGTTTAGACTATGAACAACATCCTGATGAATACCAAGCTTTCAGGCAGTGT
TCATTTTCAGAATACTTAAAAACTAAAAAACTAACTCCCAACCTTCAACATTTTGTACTGCACTCAATTGCAATGACATC
AGAATCATCTTGCACTACAATAGATGGTCTTAACGCAACTAAAAACTTCCTTCAATGTCTCGGACGGTTTGGTAACACTC
CCTTTTTATTTCCCTTGTATGGCCAAGGAGAAATTCCCCAGGGTTTCTGTAGGATGTGTGCAGTTTTTGGTGGAATCTAT
TGTCTTCGTCATAAAGTACAATGCTTTGTAGTCGACAAAGAATCTGGACGATGTAAAGCAATTATAGATCACTTTGGTCA
AAGAATAAATGCTAAATATTTTATTGTGGAAGACAGTTACCTTTCTGAGGAAACATGCTCAAATGTGCAGTATAAGCAGA
TCTCTAGGGCAGTACTCATTACAGATCAGTCTATACTAAAGACAGATTCAGATCAGCAGACTTCCATTCTGATAGTTCCT
CCAGCAGAGCCAGGAGCCTGTGCTGTACGGGTCACAGAATTATGTTCTTCAACCATGACATGCATGAAGGACACCTATCT
GGTACATTTGACATGTTCATCTTCTAAAACAGCAAGAGAAGACTTAGAATCAGTGGTGAAGAAATTATTCACTCCGTATA
CTGAAACAGAAATAAACAAGGAAGAACTTACAAAGCCAAGACTCTTGTGGGCTCTTTATTTTAATATGAGAGATTCCTCG
GAAATCAGCAGAAGCTCATATAATGGCTTGCCTTCCAATGTTTATGTCTGCTCTGGGCCTGACTGTGGCCTGGGAAATGA
GCATGCTGTCAAGCAAGCTGAAACACTTTTCCAGGAGATCTTTCCAGCTGAAGAATTCTGCCCTCCACCTCCAAATCCAG
AAGACATTATCTTTGATGGTGATGATAAGCAGCCAGAGGCTTCTGGAACCAATAATGTAATAATGGCCAAACTAGAATCC
TCTGAGGAAAGCAAAAACATAGAAAGCCCAGAGAAGCACCTTCAAAATTAG

ORF - retro_nleu_120 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.36 %
Parental protein coverage: 99.54 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMADTLPSEFDVIVIGTGLPESIVAAACSRSGRRVLHVDSRSYYGGNWASFSFSGLLSWLKEYQENSDIVN
MAD.LP.EFDV..IGTGLPESI.AAACSRSG.RVLH.DSRSYYGGNWASFSFSGLLSWLKEYQ.N.DI..
RetrocopyMADNLPTEFDVVIIGTGLPESILAAACSRSGQRVLHIDSRSYYGGNWASFSFSGLLSWLKEYQQNNDIGE
ParentalDSPV-WQDQILENEEAIALSRKDKTIQHVEVFCYASQDLHEDVEEAGALQKNHALVTSANSTEAADSAFL
.S.V.WQD.I.E.EEAI.L..KD.TIQH.E.FCYASQD.....EE.GALQKN.....S...TE..DSA.L
RetrocopyESTVAWQDLIHETEEAITLHKKDETIQHTEAFCYASQDMEDNIEEIGALQKNPSSGVSNTFTEVLDSA-L
ParentalPTEHEPLSTMSCEMLTEQTPSSGPENALEVNGAEVTGEKENHCDDKTCVPSTSAED--MSENVPIAEDTT
P.E.......S.EM....T..S..E..LEV...E...EKE..C.DKTC....S..D....E.....ED..
RetrocopyPEESQSSYFNSDEMPAKHTRKSDTEISLEVTDVEESVEKEKYCGDKTCMHTVSDKDGDKDESKSTVEDNA
ParentalEQPKKNRITYSQIIKEGRRFNIDLVSKLLYSRGLLIDLLIKSNVSRYAEFKNITRILAFREGQVEQVPCS
..P..NRITYSQI.KEGRRFNIDLVSKLLYS.GLLIDLLIKS.VSRY.EFKN.TRILAFREG.VEQVPCS
RetrocopyNEPVRNRITYSQIVKEGRRFNIDLVSKLLYSQGLLIDLLIKSDVSRYVEFKNVTRILAFREGKVEQVPCS
ParentalRADVFNSKQLTMVEKRMLMKFLTFCMEYEKYPDEYKGYEEITFYEYLKTQKLTPNLQYIVLHSIAMTSET
RADVFNSK.LTMVEKRMLMKFLTFC..YE..PDEY.......F.EYLKT.KLTPNLQ..VLHSIAMTSE.
RetrocopyRADVFNSKELTMVEKRMLMKFLTFCLDYEQHPDEYQAFRQCSFSEYLKTKKLTPNLQHFVLHSIAMTSES
ParentalASSTIDGLKATKNFLHCLGRYGNTPFLFPLYGQGELPQCFCRMCAVFGGIYCLRHSVQCLVVDKESRKCK
...TIDGL.ATKNFL.CLGR.GNTPFLFPLYGQGE.PQ.FCRMCAVFGGIYCLRH.VQC.VVDKES..CK
RetrocopySCTTIDGLNATKNFLQCLGRFGNTPFLFPLYGQGEIPQGFCRMCAVFGGIYCLRHKVQCFVVDKESGRCK
ParentalAIIDQFGQRIISEHFLVEDSYFSENMYSRVQYRQISRAVLITDRSVLKTDSDQQISILTVPAEEPGTFAV
AIID.FGQRI....F.VEDSY.SE...S.VQY.QISRAVLITD.S.LKTDSDQQ.SIL.VP..EPG..AV
RetrocopyAIIDHFGQRINAKYFIVEDSYLSEETCSNVQYKQISRAVLITDQSILKTDSDQQTSILIVPPAEPGACAV
ParentalRVIELCSSTMTCMKGTYLVHLTCTSSKTAREDLEPVVQKLFIPYTEMEIENEQVEKPRILWALYFNMRDS
RV.ELCSSTMTCMK.TYLVHLTC.SSKTAREDLE.VV.KLF.PYTE.EI..E...KPR.LWALYFNMRDS
RetrocopyRVTELCSSTMTCMKDTYLVHLTCSSSKTAREDLESVVKKLFTPYTETEINKEELTKPRLLWALYFNMRDS
ParentalSDISRSCYNDLPSNVYVCSGPDCGLGNDNAVKQAETLFQEICPNEDFCPPPPNPEDIVLDGDSLQPEASE
S.ISRS.YN.LPSNVYVCSGPDCGLGN..AVKQAETLFQEI.P.E.FCPPPPNPEDI..DGD..QPEAS.
RetrocopySEISRSSYNGLPSNVYVCSGPDCGLGNEHAVKQAETLFQEIFPAEEFCPPPPNPEDIIFDGDDKQPEASG
ParentalSSAIPEANSETVKESTNLGNLEE
......A..E...ES.N....E.
RetrocopyTNNVIMAKLESSEESKNIESPEK

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_120 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 21 parental genes, and 21 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000101901 retrocopy
retro_amel_733,
Bos taurus ENSBTAG000000095981 retrocopy
retro_btau_227,
Canis familiaris ENSCAFG000000174061 retrocopy
retro_cfam_1873,
Equus caballus ENSECAG000000192011 retrocopy
retro_ecab_36,
Felis catus ENSFCAG000000306521 retrocopy
retro_fcat_1744,
Homo sapiens ENSG000001884191 retrocopy
retro_hsap_56,
Gorilla gorilla ENSGGOG000000229121 retrocopy
retro_ggor_488,
Loxodonta africana ENSLAFG000000005231 retrocopy
retro_lafr_441,
Myotis lucifugus ENSMLUG000000112861 retrocopy
retro_mluc_138,
Macaca mulatta ENSMMUG000000167761 retrocopy
retro_mmul_460,
Monodelphis domestica ENSMODG000000143641 retrocopy
retro_mdom_1776,
Mustela putorius furoENSMPUG000000011941 retrocopy
retro_mputfur_831,
Mus musculus ENSMUSG000000255311 retrocopy
retro_mmus_284,
Nomascus leucogenys ENSNLEG00000002762 1 retrocopy
retro_nleu_120 ,
Oryctolagus cuniculus ENSOCUG000000128191 retrocopy
retro_ocun_893,
Pongo abelii ENSPPYG000000205201 retrocopy
retro_pabe_215,
Pan troglodytes ENSPTRG000000220711 retrocopy
retro_ptro_400,
Rattus norvegicus ENSRNOG000000001611 retrocopy
retro_rnor_981,
Sarcophilus harrisii ENSSHAG000000175681 retrocopy
retro_shar_127,
Ictidomys tridecemlineatus ENSSTOG000000221111 retrocopy
retro_itri_870,
Vicugna pacos ENSVPAG000000019631 retrocopy
retro_vpac_231,


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