RetrogeneDB ID:

retro_ptro_49

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:9:6080403..6083721(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSPTRG00000029349
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:IPO5
Ensembl ID:ENSPTRG00000005984
Aliases:IPO5, RANBP5
Description:importin 5 [Source:HGNC Symbol;Acc:6402]


Retrocopy-Parental alignment summary:






>retro_ptro_49
ATGGCGGCGACCGCGTCTGCAGGGGTGCCGGCGACCGTGTCAGAAAAGCAAGAGTTTTACCAGCTTCTGAAGAACCTGAT
CAATCCAAGCTGTATGGTGCGGAGGCAAGCAGAGGAAATCTATGAAAATATCCCAGGTCTGTGTAAGACTACCTTCCTCT
TAGATGCCGTCAGAAATAGAAGAGCAGGTTATGAGGTGAGACAAATGGCTGCCGCACTGCTACGACGGCTTTTGTCCTCT
GGGTTTGAGGAGGTTTATCCAAGTCTGCCTGCTGATGTTCAGAGGGATGTCAAGATTGAACTGATTCTGGCTGTTAAGTT
AGAAACACATGCTAGCATGAGGAAAAAACTTTGTGATATTTTTGCAGTGCTGGCCAGGAATTTGATAGATGAGGATGGCA
CTAACCACTGGCCGGAAGGTCTGAAGTTTCTTATTGATTCAATCTACTCCAAAAATGTGGTTCTATGGGAAGTTGCACTT
CACGTTTTCTGGCACTTTCCTGGGATTTTTGGGACCCAAGAGCGGCATGATTTGGATATCATCAAACGGTTGTTGGACCA
GTGTATTCAAGATCAAGAACATCCAGCAATCAGGACATTATCCGCTAGAGCTGCAGCTGCATTTGTACTTGCTAATGAGA
ATAATATTGCTCTTTTCAAAGACTTTGCAGACTTGCTTCCTGGAATCTTACAGGCTGTGAATGACTCATGCTACCAGGAT
GATGATTCAGTGCTAGAATCCCTTGTTGAGATTGCAGATACCGTACCTAAGTACTTGGGTCCTTATTTAGAAGATACTCT
ACAGTTGAGTTTGAAGTTATGTGGAGACTCTAGGCTTAGTAATCTGCAGCGCCAGCTGGCCCTCGAAGTTATAGTGACCT
TATCTGAAACTGCCACTCCGATGTTGAAAAAACATACAAATATTATTGCACAGGCAGTTCCTCATATATTAGCAATGATG
GTTGATCTACAAGATGATGAGGACTGGGTAAATGCTGATGAAATGGAAGAAGATGATTTTGACAGCAATGCAGTTGCTGC
GGAGAGTGCACTAGACAGACTGGCTTGTGGGCTTGGTGGAAAAGTTGTTTTACCAATGACCAAGGAGCATATCATGCAGA
TGCTTCAGAGCCCTGACTGGAAGTATCGACATGCTGGATTAATGGCCTTATCTGCCATTGGAGAAGGATGCCATCAACAA
ATGGAATCAATTCTAGATGAAACAGTTAACTCCGTTTTGCTTTTTCTTCAGGATCCTCATCCAAGGGTGAGGGCTGCAGC
CTGTACTACACTTGGACAGATGGCTACAGATTTTGCACCTAATTTCCAAAAGAAATTTCATGAAACAGTGATTGCAGCTC
TGTTACGTACCATGGAAAATCAAGGTAATCAGCGTGTGCAATCACATGCAGCTTCTGCTCTTATTATTTTTATTGAAGAC
TGCCCTAAATCATTGCTAGTTCTATATGTGGATAGTATGGTGAAAAATCTACATTCCATCTTGGTGATTAAACTTCAAGA
GTTGATTCGGAATGGAACTAAGTTGGCTTTGGAACAACTTGTGACAACCATTGCATCAGTTGCAGATACAATAGAAGAAA
AATTTGTCCCATATTATGATATATTCATGCCCTCACTAAAGCACATTGTTGAGCTTGCTGTTCAGAAGGAACTCAAGCTT
CTGAGAGGAAAAACTATCGAGTGCATTAGCCATATTGGTCTTGCTGTTGGGAAGGAAAAATTTATGCAAGATGCATCAAA
TGTGATGCAGCTGTTGTTGAAGACACAATCAGACTTAAATAATATGGAAGATGATGACCCTCAGACCTCTTACATGGTTT
CAGCATGGGCTAGAATGTGTAAAATTCTTGGAAAAGATTTTCAACAGTACCTTCCACTGGTTATCGAGCCTCTTATTAAG
ACTGCTTCAGCTAAACCTGATGTTGCTCTCTTAGACACACAGGATGTGGAAAATATGAGTGACGATGATGGCTGGCAATT
TGTAAATCTTGGAGACCAGCAGAGTTTTGGAATTAAAACTTCAGGACTTGAAGCAAAAGCAACTGCTTGCCAAATGTTGG
TTTACTATGCTAAGGAGTTAAGGGAAGGGTTTGTGGAATATACAGAACAAGTTGTGAAGCTGATGGTTCCTTTACTGAAA
TTTTATTTCCATGACAATGTTCGAGTGGCAGCAGCAGAGTCCATGCCTTTTCTCCTGGAATGTGCAAGAATTCGTGGCCC
AGAGTATCTTGCACAGATGTGGCAATTCATATGTGACCCCTTAATCAAGGCTATTGGTACTGAACCAGATACAGATGTGC
TCTCAGAAATAATGAATTCTTTTGCAAAGTCCATTGAAGTTATGGGAGATGGTTGCCTTAATGATGAACACTTGGAAGAA
CTGGGAGGAATACTGAAAGCAAAACTTGAAGGGCACTTTAAAAACCAAGAATTGAGACAGGTGAAAAGACAGGAAGAAAA
CTATGATCAACAGGTTGAGATGTCTCTGCAAGATGAGGATGAATGTGATGTTTATATTCTGACCAAAGTATCAGATATTT
TGCACTCATTATTTAGTACTTATAAGGAAAAGATTTTACCATGGTTTGAACAACTACTTCCATTAATTGTAAATCTAATT
TGTTCAAGTAGGCCATGGCCAGACAGACAGTGGGGATTGTGCATATTTGATGACATCATAGAGCACTGCAGTCCAACTTC
ATTTAAATATGTAGAATATTTTCGGTGGCCAATGCTACTAAATATGCGAGATAACAACCCTGAAGTCAGGCAAGCTGCTG
CTTATGGCCTGGGTGTCATGGCACAGTTTGGTGGAGATGATTATCGTTCTTTATGTTCAGAAGCTGTTCCACTGCTGGTA
AAAGTTATTAAGTGTGCAAATTCCAAAACCAAAAAAAATGTCATTGCTACAGAGAACTGTATCTCAGCAATAGGGAAGAT
TTTGAAGTTTAAGCCTAACTGTGTAAATGTAGATGAAGTTCTTCCACACTGGTTATCATGGCTTCCACTGCATGAAGATA
AAGAGGAAGCTATTCAGACTTTGAGTTTTCTCTGTGACCTAATTGAAAGTAACCACCCAGTTGTAATTGGTCCAAATAAT
TCCAATCTTCCCAAAATAATCAGTATAATTGCAGAAGGAAAAATTAATGAGACTATTAACTATGAAGATCCTTGTGCCAA
ACGCCTAGCTAATGTCGTGCGTCAGGTACAGACTTCTGAAGATTTATGGTTGGAATGTGTATCACAACTTGATGATGAAC
AGCAGGAAGCCTTACAGGAGTTGCTAAATTTTGCTTGA

ORF - retro_ptro_49 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.06 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalQETYENIPGQSKITFLLQAIRNTTAAEEARQMAAVLLRRLLSSAFDEVYPALPSDVQTAIKSELLMIIQM
.E.YENIPG..K.TFLL.A.RN..A..E.RQMAA.LLRRLLSS.F.EVYP.LP.DVQ...K.EL......
RetrocopyEEIYENIPGLCKTTFLLDAVRNRRAGYEVRQMAAALLRRLLSSGFEEVYPSLPADVQRDVKIELILAVKL
ParentalETQSSMRKKVCDIAAELARNLIDEDGNNQWPEGLKFLFDSVSSQNVGLREAALHIFWNFPGIFGNQQQHY
ET..SMRKK.CDI.A.LARNLIDEDG.N.WPEGLKFL.DS..S.NV.L.E.ALH.FW.FPGIFG.Q..H.
RetrocopyETHASMRKKLCDIFAVLARNLIDEDGTNHWPEGLKFLIDSIYSKNVVLWEVALHVFWHFPGIFGTQERHD
ParentalLDVIKRMLVQCMQDQEHPSIRTLSARATAAFILANEHNVALFKHFADLLPGFLQAVNDSCYQNDDSVLKS
LD.IKR.L.QC.QDQEHP.IRTLSARA.AAF.LANE.N.ALFK.FADLLPG.LQAVNDSCYQ.DDSVL.S
RetrocopyLDIIKRLLDQCIQDQEHPAIRTLSARAAAAFVLANENNIALFKDFADLLPGILQAVNDSCYQDDDSVLES
ParentalLVEIADTVPKYLRPHLEATLQLSLKLCGDTSLNNMQRQLALEVIVTLSETAAAMLRKHTNIVAQTIPQML
LVEIADTVPKYL.P.LE.TLQLSLKLCGD..L.N.QRQLALEVIVTLSETA..ML.KHTNI.AQ..P..L
RetrocopyLVEIADTVPKYLGPYLEDTLQLSLKLCGDSRLSNLQRQLALEVIVTLSETATPMLKKHTNIIAQAVPHIL
ParentalAMMVDLEEDEDWANADELEDDDFDSNAVAGESALDRMACGLGGKLVLPMIKEHIMQMLQNPDWKYRHAGL
AMMVDL..DEDW.NADE.E.DDFDSNAVA.ESALDR.ACGLGGK.VLPM.KEHIMQMLQ.PDWKYRHAGL
RetrocopyAMMVDLQDDEDWVNADEMEEDDFDSNAVAAESALDRLACGLGGKVVLPMTKEHIMQMLQSPDWKYRHAGL
ParentalMALSAIGEGCHQQMEGILNEIVNFVLLFLQDPHPRVRYAACNAVGQMATDFAPGFQKKFHEKVIAALLQT
MALSAIGEGCHQQME.IL.E.VN.VLLFLQDPHPRVR.AAC...GQMATDFAP.FQKKFHE.VIAALL.T
RetrocopyMALSAIGEGCHQQMESILDETVNSVLLFLQDPHPRVRAAACTTLGQMATDFAPNFQKKFHETVIAALLRT
ParentalMEDQGNQRVQAHAAAALINFTEDCPKSLLIPYLDNLVKHLHSIMVLKLQELIQKGTKLVLEQVVTSIASV
ME.QGNQRVQ.HAA.ALI.F.EDCPKSLL..Y.D..VK.LHSI.V.KLQELI..GTKL.LEQ.VT.IASV
RetrocopyMENQGNQRVQSHAASALIIFIEDCPKSLLVLYVDSMVKNLHSILVIKLQELIRNGTKLALEQLVTTIASV
ParentalADTAEEKFVPYYDLFMPSLKHIVENAVQKELRLLRGKTIECISLIGLAVGKEKFMQDASDVMQLLLKTQT
ADT.EEKFVPYYD.FMPSLKHIVE.AVQKEL.LLRGKTIECIS.IGLAVGKEKFMQDAS.VMQLLLKTQ.
RetrocopyADTIEEKFVPYYDIFMPSLKHIVELAVQKELKLLRGKTIECISHIGLAVGKEKFMQDASNVMQLLLKTQS
ParentalDFNDMEDDDPQISYMISAWARMCKILGKEFQQYLPVVMGPLMKTASIKPEVALLDTQDMENMSDDDGWEF
D.N.MEDDDPQ.SYM.SAWARMCKILGK.FQQYLP.V..PL.KTAS.KP.VALLDTQD.ENMSDDDGW.F
RetrocopyDLNNMEDDDPQTSYMVSAWARMCKILGKDFQQYLPLVIEPLIKTASAKPDVALLDTQDVENMSDDDGWQF
ParentalVNLGDQQSFGIKTAGLEEKSTACQMLVCYAKELKEGFVEYTEQVVKLMVPLLKFYFHDGVRVAAAESMPL
VNLGDQQSFGIKT.GLE.K.TACQMLV.YAKEL.EGFVEYTEQVVKLMVPLLKFYFHD.VRVAAAESMP.
RetrocopyVNLGDQQSFGIKTSGLEAKATACQMLVYYAKELREGFVEYTEQVVKLMVPLLKFYFHDNVRVAAAESMPF
ParentalLLECARVRGPEYLTQMWHFMCDALIKAIGTEPDSDVLSEIMHSFAKCIEVMGDGCLNNEHFEELGGILKA
LLECAR.RGPEYL.QMW.F.CD.LIKAIGTEPD.DVLSEIM.SFAK.IEVMGDGCLN.EH.EELGGILKA
RetrocopyLLECARIRGPEYLAQMWQFICDPLIKAIGTEPDTDVLSEIMNSFAKSIEVMGDGCLNDEHLEELGGILKA
ParentalKLEEHFKNQELRQVKRQDEDYDEQVEESLQDEDDNDVYILTKVSDILHSIFSSYKEKVLPWFEQLLPLIV
KLE.HFKNQELRQVKRQ.E.YD.QVE.SLQDED..DVYILTKVSDILHS.FS.YKEK.LPWFEQLLPLIV
RetrocopyKLEGHFKNQELRQVKRQEENYDQQVEMSLQDEDECDVYILTKVSDILHSLFSTYKEKILPWFEQLLPLIV
ParentalNLICPHRPWPDRQWGLCIFDDVIEHCSPASFKYAEYFLRPMLQYVCDNSPEVRQAAAYGLGVMAQYGGDN
NLIC..RPWPDRQWGLCIFDD.IEHCSP.SFKY.EYF..PML....DN.PEVRQAAAYGLGVMAQ.GGD.
RetrocopyNLICSSRPWPDRQWGLCIFDDIIEHCSPTSFKYVEYFRWPMLLNMRDNNPEVRQAAAYGLGVMAQFGGDD
ParentalYRPFCTEALPLLVRVIQSADSKTKENVNATENCISAVGKIMKFKPDCVNVEEVLPHWLSWLPLHEDKEEA
YR..C.EA.PLLV.VI..A.SKTK.NV.ATENCISA.GKI.KFKP.CVNV.EVLPHWLSWLPLHEDKEEA
RetrocopyYRSLCSEAVPLLVKVIKCANSKTKKNVIATENCISAIGKILKFKPNCVNVDEVLPHWLSWLPLHEDKEEA
ParentalVQTFNYLCDLIESNHPIVLGPNNTNLPKIFSIIAEGEMHEAIKHEDPCAKRLANVVRQVQTSGGLWTECI
.QT...LCDLIESNHP.V.GPNN.NLPKI.SIIAEG...E.I..EDPCAKRLANVVRQVQTS..LW.EC.
RetrocopyIQTLSFLCDLIESNHPVVIGPNNSNLPKIISIIAEGKINETINYEDPCAKRLANVVRQVQTSEDLWLECV
ParentalAQLSPEQQAAIQELLNSA
.QL..EQQ.A.QELLN.A
RetrocopySQLDDEQQEALQELLNFA

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






RNA-Seq - click to see more details

(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain_prefrontal_cortex 17 .48 RPM 43 .85 RPM
SRP007412_cerebellum 24 .56 RPM 56 .00 RPM
SRP007412_heart 19 .64 RPM 51 .50 RPM
SRP007412_kidney 16 .08 RPM 49 .58 RPM
SRP007412_liver 8 .45 RPM 21 .64 RPM
SRP007412_testis 9 .06 RPM 435 .34 RPM

ChIP-Seq - click to see more details

Pan troglodytes was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ptro_49 retrocopy.

TSS - click to see more details

Pan troglodytes was not studied using FANTOM5 data.

Lab - click to see more details

retro_ptro_49 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_49 has 4 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_57
Gorilla gorilla retro_ggor_47
Mus musculus retro_mmus_251
Rattus norvegicus retro_rnor_240
Parental genes homology:
Parental genes homology involve 21 parental genes, and 25 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000037841 retrocopy
retro_amel_3,
Bos taurus ENSBTAG000000393741 retrocopy
retro_btau_104,
Canis familiaris ENSCAFG000000055611 retrocopy
retro_cfam_452,
Choloepus hoffmanni ENSCHOG000000060611 retrocopy
retro_chof_11,
Cavia porcellus ENSCPOG000000048272 retrocopies
retro_cpor_265, retro_cpor_57,
Equus caballus ENSECAG000000148081 retrocopy
retro_ecab_37,
Felis catus ENSFCAG000000256571 retrocopy
retro_fcat_24,
Homo sapiens ENSG000000651501 retrocopy
retro_hsap_57,
Gorilla gorilla ENSGGOG000000087421 retrocopy
retro_ggor_47,
Loxodonta africana ENSLAFG000000161901 retrocopy
retro_lafr_22,
Myotis lucifugus ENSMLUG000000065001 retrocopy
retro_mluc_295,
Mus musculus ENSMUSG000000306622 retrocopies
retro_mmus_251, retro_mmus_3683,
Nomascus leucogenys ENSNLEG000000078312 retrocopies
retro_nleu_1610, retro_nleu_2482,
Oryctolagus cuniculus ENSOCUG000000038981 retrocopy
retro_ocun_143,
Otolemur garnettii ENSOGAG000000075701 retrocopy
retro_ogar_169,
Pongo abelii ENSPPYG000000054581 retrocopy
retro_pabe_172,
Pan troglodytes ENSPTRG00000005984 2 retrocopies
retro_ptro_49 , retro_ptro_745,
Pteropus vampyrus ENSPVAG000000045161 retrocopy
retro_pvam_8,
Rattus norvegicus ENSRNOG000000109891 retrocopy
retro_rnor_240,
Sus scrofa ENSSSCG000000095091 retrocopy
retro_sscr_24,
Ictidomys tridecemlineatus ENSSTOG000000111641 retrocopy
retro_itri_32,


Copyright © RetrogeneDB 2014-2017