RetrogeneDB ID:

retro_cfam_452

Retrocopy
location
Organism:Dog (Canis familiaris)
Coordinates:11:27046884..27050145(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCAFG00000031402
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:IPO5
Ensembl ID:ENSCAFG00000005561
Aliases:IPO5, RANBP5
Description:importin 5 [Source:HGNC Symbol;Acc:6402]


Retrocopy-Parental alignment summary:






>retro_cfam_452
TTTTATCAGCTTCTGAAGAACTTGATCAATCCAAGCTGTATGGTGCGGAGGCAGGCAGAGGAAATCTATGAAAATATCCC
AGGTCTGTGTAAGACTACATTCCTCTTAGATGCTGTCAGAAATAGAAGAGCAGGTTATGAGGTGAGACAAATGGCTGCCG
CACTGCTACGACGGCTTTTGTCCTCTGGGTTTGAGGAAGTCTATCCAAATCTGCCTTCTGATGTTCAGAGGGACGTCAAG
ATTGAACTGATACTGGCTGTTAAGTTAGAAACACATGCTAGCATGAGGAAAAAACTTTGTGATATTTTTGCAGTGCTGGC
CAGGAATTTGATAGATGAGGATGGCACTAACCACTGGCCCGAAGGTCTGAAGTTCCTTATCGATTCAATCTACTCTAAAA
ATGTAGTTCTATGGGAAGTTGCACTTCATGTTTTCTGGCACTTTCCTGGGATCTTTGGGAACCAAGAGCGGCACGATTTG
GATATCATCAAACGGTTGTTGGACCAGTGCATTCAGGATCAAGAACATCCAGCAATCAGGACATTATCTGCTAGAGCTGC
AGCTGCATTTGTACTTGCTAATGAGAATAATATTGCTCTTTTCAAAGACTTTTCAGACTTGCTTCCTGGAATCTTACAGG
CTGTGAGTGACTCATGCTACCAGGATGATGATTCAGTGCTAGAATCCCTTGTTGAGATTGCAGATACTGTACCTAAATAC
TTGGGTCCTTATTTAGAAGACACTCTGCAGTTGAGTCTGAAGTTATGTGGAGACTCTAGACTTAGTAATCTGCAACGCCA
GCTGGCCCTTGAAATAATAGTGACCTTGTCTGAAACTGCAACCCCAATGTTGAAAAAACATACAAATATAATTGCACAGG
CAGTTCCTCATATATTAGCAATGATGGTTGATCTACAAGATGATGAGGACTGGGTAAATGCTGATGAGATGGAAGAAGAT
GATTTTGACAGCAATGCAGTTGCTGCTGAGAGTGCACTAGACAGACTGGCTTGTGGGCTCGGTGGAAAACTTGTTTTACC
AATGACTAAGGAGCACATCATGCAGATGCTTCAGAGCCCTGACTGGAAATATCGACATGCTGGATTAATGGCCTTATCTG
CCATTGGAGAAGGATGCCATCAGCAAATGGAATCAATTCTAGATGAAACAGTTAACTCTGTTTTGCTTTTTCTTCAGGAT
CCTCACCCAAGGGTGAGGGCTGCAGCCTGTACTACGCTTGGACAGATGGCTACAGATTTTGCGCCTAACTTCCAAAAGAA
ATTCCATGAAACAGTGATTGCAGCTCTGTTGCGTACCATGGAAAATCAAGGTAATCAGCGTGTGCAATCACATGCGGCTT
CTGCACTTATTATTTTTATAGAAGACTGCCCCAAAGCATTGCTAGTTCTATATTTGGATAGTATGGTGAGAAATCTACAT
TCCATCTTGGTGATTAAACTTCAAGAGTTGATTCGGAATGGAACTAAATTGGCCTTGGAACAGCTTGTGACAACCATTGC
CTCAGTTGCAGATACAATAGAAGAAAAATTTGTTCCATATTATGATATATTTATGCCATCACTAAAGCACATTGTTGAGC
TTGCTATTCAAAAGGAACTCAAGCTTCTGAAAGGAAAAACTATTGAGTGCATTAGCCATGTTGGTCTTGCTGTTGGGAAG
GAAAAATTTATGCAAGATGCATCAAATGTGATGCAGCTATTGTTGAAGACACAATCAGACTTAAATAATATGGAAGATGA
TGACCCTCAGACATCTTACATGGTTTCAGCATGGGCCAGAATGTGTAAAATTCTTGGAAGTGATTTTCAACAGTATCTTC
CACTGGTTATTGAGCCTCTCATTAAGACTGCTTCAGCAAAACCTGATGTTGCTCTCTTAGACACACAAGATGTGGAAAAT
ATGAGTGATGATGATGGATGGCAATTTGTAAATCTTGGAGACCAACAAAGTTTTGGAATTAAAACTTCAGGACTTGAAGC
AAAAGCAACTGCTTGTCAAATGTTGGTTTACTATGCTAAGGAATTAGGGGAAGGATTTGTGGAATATACAGAACAAGTTG
TAAAGCTTATGGTTCCTTTATTGAAATTTTATTTCCATGACAATGTTCGAGTGGCAGCAGCAGAGTCTATGCCTTTTCTC
CTGGAATGTGCAAGAATTCGTGGCCCAGAGTATCTTGCACAGATGTGGCAATTCATATGTGATCCTTTAATCAAGGCTAT
TGGGACTGAACCTGATACAGATGTACTCTCAGAAGTAATGAATTCTTTTGCAAAATCCATTGAAGTAATGGGAGATGGGT
GCCTTAATGATGAACACTTGGAAGAACTAGGAGAAATACTGAAAGCAAAACTTGAAGGGCATTTTAAAAACCAAGAATTG
AGACAGGTTAAAAGACAGGAAGAAAACTATGACCAACAGGTTGAAATGTCTCTACAAGATGAGGATGAATGTGATGTTTA
TATTCTGACCAAAGTATCAGATATTTTGCACTCATTATTTAGTACTTATAAGGAAAAGATTTTACCGTGGTTTGAACAGC
TGCTTCCATTAATTGTAAATCTAATTTGTTCAAGTAGGCCATGGCCAGACAGACAGTGGGGATTGTGCATTTTTGATGAT
ATTATAGAGCACTGCAGTCCAACCTCATTTAAATATGTAGAATATTTTAGGTGGCCAATGCTACTAAATATGCGAGACAA
TAACCCTGAAGTCAGACAAGCTGCTGCTTATGGCCTGGGTGTTATGGCACAGTTTGGTGGAGATGATTATCGTTCTTTAT
GTTCGGAAGCTGTTCCACTGCTGGTAAAAGTTATTAAGTGTGCAAATTCCAAAACCAAAAAAAATGTCATTGCTACAGAG
AACTGTATTTCAGCAGTAGGGAAGATTCTGAGGTTTAAGCCTAACTGTGTAAATGTAGATGAAGTTCTTCCACATTGGTT
ATCATGGCTTCCACTGCATGAGGATAAAGAGGAAGCTATTCAGTCTTTGAGTTTTCTCTGTGACTTAATTGAAAGTAATC
ATCCAGTTGTACTTGGTCCAAATAATTCCAATCTTCCCAAAATAATCAGTATAATTGCAGAAGGAAAAGTTAATGAGACT
ATTAACTATGAAGATCCTTGTGCCAAACGCCTAGCTAATGTTGTGCGTCAGGTACAGACTTCTGAAGAATTATGGTTGGA
ATGCATATCCCAACTTGATGATGAGCAGCAGGAAGCTTTACAGGAGCTGCTAAATTTTGCT

ORF - retro_cfam_452 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.05 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalFHLLSLGLLSRETKILKCAHETYENIPGQSKITFLLQAIRNTTAAEEARQMAAVLLRRLLSSAFDEVYPT
F..L...L..........A.E.YENIPG..K.TFLL.A.RN..A..E.RQMAA.LLRRLLSS.F.EVYP.
RetrocopyFYQLLKNLINPSCMVRRQAEEIYENIPGLCKTTFLLDAVRNRRAGYEVRQMAAALLRRLLSSGFEEVYPN
ParentalLPSDVQTAIKSELLMIIQMETQSSMRKKICDIAAELARNLIDEDGNNQWPEGLKFLFDSVSSQNMGLREA
LPSDVQ...K.EL......ET..SMRKK.CDI.A.LARNLIDEDG.N.WPEGLKFL.DS..S.N..L.E.
RetrocopyLPSDVQRDVKIELILAVKLETHASMRKKLCDIFAVLARNLIDEDGTNHWPEGLKFLIDSIYSKNVVLWEV
ParentalALHIFWNFPGIFGNQQQHYLDVIKRMLVQCMQDQEHPSIRTLSARATAAFILANEHNVALFKHFADLLPG
ALH.FW.FPGIFGNQ..H.LD.IKR.L.QC.QDQEHP.IRTLSARA.AAF.LANE.N.ALFK.F.DLLPG
RetrocopyALHVFWHFPGIFGNQERHDLDIIKRLLDQCIQDQEHPAIRTLSARAAAAFVLANENNIALFKDFSDLLPG
ParentalFLQAVNDSCYQNDDSVLKSLVEIADTVPKYLRPHLEATLQLSLKLCGDTNLNNMQRQLALEVIVTLSETA
.LQAV.DSCYQ.DDSVL.SLVEIADTVPKYL.P.LE.TLQLSLKLCGD..L.N.QRQLALE.IVTLSETA
RetrocopyILQAVSDSCYQDDDSVLESLVEIADTVPKYLGPYLEDTLQLSLKLCGDSRLSNLQRQLALEIIVTLSETA
ParentalAAMLRKHTNIVAQTIPQMLAMMVDLEEDEDWANADELEDDDFDSNAVAGESALDRMACGLGGKLVLPMIK
..ML.KHTNI.AQ..P..LAMMVDL..DEDW.NADE.E.DDFDSNAVA.ESALDR.ACGLGGKLVLPM.K
RetrocopyTPMLKKHTNIIAQAVPHILAMMVDLQDDEDWVNADEMEEDDFDSNAVAAESALDRLACGLGGKLVLPMTK
ParentalEHIMQMLQNPDWKYRHAGLMALSAIGEGCHQQMEGILNEIVNFVLLFLQDPHPRVRYAACNAVGQMATDF
EHIMQMLQ.PDWKYRHAGLMALSAIGEGCHQQME.IL.E.VN.VLLFLQDPHPRVR.AAC...GQMATDF
RetrocopyEHIMQMLQSPDWKYRHAGLMALSAIGEGCHQQMESILDETVNSVLLFLQDPHPRVRAAACTTLGQMATDF
ParentalAPGFQKKFHEKVIAALLQTMEDQGNQRVQAHAAAALINFTEDCPKSLLIPYLDNLVKHLHSIMVLKLQEL
AP.FQKKFHE.VIAALL.TME.QGNQRVQ.HAA.ALI.F.EDCPK.LL..YLD..V..LHSI.V.KLQEL
RetrocopyAPNFQKKFHETVIAALLRTMENQGNQRVQSHAASALIIFIEDCPKALLVLYLDSMVRNLHSILVIKLQEL
ParentalIQKGTKLVLEQVVTSIASVADTAEEKFVPYYDLFMPSLKHIVENAVQKELRLLRGKTIECISLIGLAVGK
I..GTKL.LEQ.VT.IASVADT.EEKFVPYYD.FMPSLKHIVE.A.QKEL.LL.GKTIECIS..GLAVGK
RetrocopyIRNGTKLALEQLVTTIASVADTIEEKFVPYYDIFMPSLKHIVELAIQKELKLLKGKTIECISHVGLAVGK
ParentalEKFMQDASDVMQLLLKTQTDFSDMEDDDPQISYMISAWARMCKILGKEFQQYLPVVMGPLMKTASIKPEV
EKFMQDAS.VMQLLLKTQ.D...MEDDDPQ.SYM.SAWARMCKILG..FQQYLP.V..PL.KTAS.KP.V
RetrocopyEKFMQDASNVMQLLLKTQSDLNNMEDDDPQTSYMVSAWARMCKILGSDFQQYLPLVIEPLIKTASAKPDV
ParentalALLDTQDMENMSDDDGWEFVNLGDQQSFGIKTAGLEEKSTACQMLVCYAKELKEGFVEYTEQVVKLMVPL
ALLDTQD.ENMSDDDGW.FVNLGDQQSFGIKT.GLE.K.TACQMLV.YAKEL.EGFVEYTEQVVKLMVPL
RetrocopyALLDTQDVENMSDDDGWQFVNLGDQQSFGIKTSGLEAKATACQMLVYYAKELGEGFVEYTEQVVKLMVPL
ParentalLKFYFHDNKRVRVAAAESMPLLLECARVRGPEYLTQMWHFMCDALIKAIGTEPDSDVLSEIMHSFAKCIE
LKFYFHDN..VRVAAAESMP.LLECAR.RGPEYL.QMW.F.CD.LIKAIGTEPD.DVLSE.M.SFAK.IE
RetrocopyLKFYFHDN--VRVAAAESMPFLLECARIRGPEYLAQMWQFICDPLIKAIGTEPDTDVLSEVMNSFAKSIE
ParentalVMGDGCLNNEHFEELGGILKAKLEEHFKNQELRQVKRQDEDYDEQVEESLQDEDDNDVYILTKVSDILHS
VMGDGCLN.EH.EELG.ILKAKLE.HFKNQELRQVKRQ.E.YD.QVE.SLQDED..DVYILTKVSDILHS
RetrocopyVMGDGCLNDEHLEELGEILKAKLEGHFKNQELRQVKRQEENYDQQVEMSLQDEDECDVYILTKVSDILHS
ParentalIFSSYKEKVLPWFEQLLPLIVNLICPHRPWPDRQWGLCIFDDVIEHCSPASFKYAEYFLRPMLQYVCDNS
.FS.YKEK.LPWFEQLLPLIVNLIC..RPWPDRQWGLCIFDD.IEHCSP.SFKY.EYF..PML....DN.
RetrocopyLFSTYKEKILPWFEQLLPLIVNLICSSRPWPDRQWGLCIFDDIIEHCSPTSFKYVEYFRWPMLLNMRDNN
ParentalPEVRQAAAYGLGVMAQYGGDNYRPFCTEALPLLVRVIQSADSKTKENVNATENCISAVGKIMKFKPDCVN
PEVRQAAAYGLGVMAQ.GGD.YR..C.EA.PLLV.VI..A.SKT...V.ATENCISAVGKI..FKP.CVN
RetrocopyPEVRQAAAYGLGVMAQFGGDDYRSLCSEAVPLLVKVIKCANSKTXXXVIATENCISAVGKILRFKPNCVN
ParentalVEEVLPHWLSWLPLHEDKEEAVQTFNYLCDLIESNHPIVLGPNNTNLPKIFSIIAEGEMHEAIKHEDPCA
V.EVLPHWLSWLPLHEDKEEA.Q....LCDLIESNHP.VLGPNN.NLPKI.SIIAEG...E.I..EDPCA
RetrocopyVDEVLPHWLSWLPLHEDKEEAIQSLSFLCDLIESNHPVVLGPNNSNLPKIISIIAEGKVNETINYEDPCA
ParentalKRLANVVRQVQTSGGLWTECIAQLSPEQQAAIQELLNSA
KRLANVVRQVQTS..LW.ECI.QL..EQQ.A.QELLN.A
RetrocopyKRLANVVRQVQTSEELWLECISQLDDEQQEALQELLNFA

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
SRP012049_cerebellum 29 .44 RPM 99 .12 RPM
SRP017611_brain 51 .68 RPM 85 .66 RPM
SRP017611_kidney 17 .04 RPM 205 .77 RPM
SRP017611_liver 6 .82 RPM 47 .57 RPM

ChIP-Seq - click to see more details

Canis familiaris was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_cfam_452 retrocopy.

TSS - click to see more details

Canis familiaris was not studied using FANTOM5 data.

Lab - click to see more details

retro_cfam_452 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cfam_452 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Sus scrofa retro_sscr_24
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 ENSCAFG00000005561 1 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 ENSPTRG000000059842 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,


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