RetrogeneDB ID:

retro_ptro_745

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:12:20104024..20106094(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
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_745
TTGCAGGATCCTCATCCAAGAGTAAGGTATGCAGCCTGTAATGCCGTGGGACAGATGGCTACAGATTTTGCACCTGGTTT
CCAAAAGAAATTTCATGAGAAGGTGATTGCAGCTCTGCTGCAGACCATGGAAGACCAAGGCAATCAACGTGTGCAGGCCC
ATGCAGCTGCTGCCCTCATTAACTTTACTGAAGACTGTCCCAAGTCACTACTTATTCCATACTTGGATAATTTGGTGAAA
CATCTGCATTCCATTATGGTACTGAAGCTTCAAGAGCTGATTCAGAAAGGCACCAAGTTAGTTTTGGAACAAGTTGTGAC
ATCCATTGCATCAGTTGCTGATACTGCAGAAAAAAAATTTGTCCCCTACTATGATTTATTTATGCCATCACTGAAGCACA
TCGTTGAGAATGCGGTTCAAAAAGAACTGAGACTTCTGAGAGGAAAAACTATTGAATGCATTAGCCTCATTGGTCTGGCT
GTTGGGAAGGAAAAATTCATGCAGGATGCATCAGATGTGATGCAGCTTTTGTTAAAGACCCAGACAGACTTCAATGATAT
GGAAGATGATGATCCTCAGATCTCTTACATGATCTCAGCATGGGCCAGAATGTGCAAACTCCTTGGAAAAGAATTTCAGC
AATACCTTCCAGTGGTTATGGGGCCTTTAATGAAGACGGCTTCAATTAAGCCCGAAGTAGCCCTTTTAGATACCCAAGAC
ATGGAGAATATGAGTGATGATGATGGTTGGGAATTTGTGAACCTTGGAGATCAGCAAAGCTTTGGTATTAAAACTGCAGG
ACTAGAAGAAAAATCAACTGCTTGCCAGATGTTGGTTTGCTATGCTAAGGAGTTAAAGGAAGGCTTTGTGGAGTACACTG
AACAGGTTGTCAAACTGATGGTCCCTTTACTGAAATTTTATTTCCACGATGGTGTTCGAGTGGCAGCAGCGGAATCCATG
CCTCTTCTCCTGGAGTGTGCAAGAGTCCGTGGTCCTGAGTATCTCACACAAATGTGGCATTTTATGTGTGATGCTCTAAT
TAAGGCCATTGGTACAGAACCAGATTCAGACGTCCTCTCAGAAATAATGCATTCTTTTGCAAAGTGCATTGAAGTAATGG
GAGATGGATGCCTTAATAATGAACACTTTGAAGAACTGGGAGGTATATTGAAAGCAAAGCTTGAAGAACATTTTAAAAAT
CAAGAATTACGACAAGTTAAAAGACAAGATGAAGACTATGATGAACAGGTCGAAGAGTCACTACAAGATGAGGATGATAA
TGATGTTTATATTCTGACCAAAGTGTCAGATATTTTACACTCAATATTCAGTAGCTACAAAGAAAAGGTGTTACCATGGT
TTGAACAGCTGCTTCCATTAATTGTCAACCTCATTTGTCCACATAGACCATGGCCAGACAGACAATGGGGATTATGCATC
TTTGATGATGTCATAGAACACTGTAGTCCAGCCTCATTTAAATATGCAGAATATTTCTTAAGACCAATGCTCCAATATGT
ATGTGACAACAGCCCAGAAGTCAGGCAAGCAGCTGCATATGGCCTGGGAGTCATGGCACAGTATGGTGGAGATAATTATC
GCCCTTTTTGTACAGAAGCACTTCCCCTGCTGGTAAGAGTTATTCAGTCTGCGGATTCTAAGACCAAAGAAAATGTCAAT
GCTACAGAGAATTGCATCTCAGCAGTAGGGAAAATCATGAAGTTCAAGCCTGACTGTGTAAACGTTGAAGAGGTCCTTCC
ACACTGGTTGTCTTGGCTTCCACTACATGAAGATAAAGAAGAAGCTGTTCAGACTTTCAATTATCTGTGTGACCTGATTG
AAAGTAATCATCCAATTGTTCTTGGCCCAAACAATACCAATCTGCCCAAAATATTCAGTATAATTGCAGAAGGAGAAATG
CACGAGGCAATTAAACATGAAGATCCTTGTGCCAAACGTCTGGCCAATGTCGTTCGCCAAGTACAGACTTCTGGAGGACT
GTGGACTGAGTGCATAGCACAGCTCAGTCCTGAGCAGCAGGCCGCCATTCAGGAGTTCCTGAACTCTGCG

ORF - retro_ptro_745 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 99.28 %
Parental protein coverage: 64.61 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLQDPHPRVRYAACNAVGQMATDFAPGFQKKFHEKVIAALLQTMEDQGNQRVQAHAAAALINFTEDCPKSL
LQDPHPRVRYAACNAVGQMATDFAPGFQKKFHEKVIAALLQTMEDQGNQRVQAHAAAALINFTEDCPKSL
RetrocopyLQDPHPRVRYAACNAVGQMATDFAPGFQKKFHEKVIAALLQTMEDQGNQRVQAHAAAALINFTEDCPKSL
ParentalLIPYLDNLVKHLHSIMVLKLQELIQKGTKLVLEQVVTSIASVADTAEEKFVPYYDLFMPSLKHIVENAVQ
LIPYLDNLVKHLHSIMVLKLQELIQKGTKLVLEQVVTSIASVADTA...FVPYYDLFMPSLKHIVENAVQ
RetrocopyLIPYLDNLVKHLHSIMVLKLQELIQKGTKLVLEQVVTSIASVADTAXXXFVPYYDLFMPSLKHIVENAVQ
ParentalKELRLLRGKTIECISLIGLAVGKEKFMQDASDVMQLLLKTQTDFNDMEDDDPQISYMISAWARMCKILGK
KELRLLRGKTIECISLIGLAVGKEKFMQDASDVMQLLLKTQTDFNDMEDDDPQISYMISAWARMCK.LGK
RetrocopyKELRLLRGKTIECISLIGLAVGKEKFMQDASDVMQLLLKTQTDFNDMEDDDPQISYMISAWARMCKLLGK
ParentalEFQQYLPVVMGPLMKTASIKPEVALLDTQDMENMSDDDGWEFVNLGDQQSFGIKTAGLEEKSTACQMLVC
EFQQYLPVVMGPLMKTASIKPEVALLDTQDMENMSDDDGWEFVNLGDQQSFGIKTAGLEEKSTACQMLVC
RetrocopyEFQQYLPVVMGPLMKTASIKPEVALLDTQDMENMSDDDGWEFVNLGDQQSFGIKTAGLEEKSTACQMLVC
ParentalYAKELKEGFVEYTEQVVKLMVPLLKFYFHDGVRVAAAESMPLLLECARVRGPEYLTQMWHFMCDALIKAI
YAKELKEGFVEYTEQVVKLMVPLLKFYFHDGVRVAAAESMPLLLECARVRGPEYLTQMWHFMCDALIKAI
RetrocopyYAKELKEGFVEYTEQVVKLMVPLLKFYFHDGVRVAAAESMPLLLECARVRGPEYLTQMWHFMCDALIKAI
ParentalGTEPDSDVLSEIMHSFAKCIEVMGDGCLNNEHFEELGGILKAKLEEHFKNQELRQVKRQDEDYDEQVEES
GTEPDSDVLSEIMHSFAKCIEVMGDGCLNNEHFEELGGILKAKLEEHFKNQELRQVKRQDEDYDEQVEES
RetrocopyGTEPDSDVLSEIMHSFAKCIEVMGDGCLNNEHFEELGGILKAKLEEHFKNQELRQVKRQDEDYDEQVEES
ParentalLQDEDDNDVYILTKVSDILHSIFSSYKEKVLPWFEQLLPLIVNLICPHRPWPDRQWGLCIFDDVIEHCSP
LQDEDDNDVYILTKVSDILHSIFSSYKEKVLPWFEQLLPLIVNLICPHRPWPDRQWGLCIFDDVIEHCSP
RetrocopyLQDEDDNDVYILTKVSDILHSIFSSYKEKVLPWFEQLLPLIVNLICPHRPWPDRQWGLCIFDDVIEHCSP
ParentalASFKYAEYFLRPMLQYVCDNSPEVRQAAAYGLGVMAQYGGDNYRPFCTEALPLLVRVIQSADSKTKENVN
ASFKYAEYFLRPMLQYVCDNSPEVRQAAAYGLGVMAQYGGDNYRPFCTEALPLLVRVIQSADSKTKENVN
RetrocopyASFKYAEYFLRPMLQYVCDNSPEVRQAAAYGLGVMAQYGGDNYRPFCTEALPLLVRVIQSADSKTKENVN
ParentalATENCISAVGKIMKFKPDCVNVEEVLPHWLSWLPLHEDKEEAVQTFNYLCDLIESNHPIVLGPNNTNLPK
ATENCISAVGKIMKFKPDCVNVEEVLPHWLSWLPLHEDKEEAVQTFNYLCDLIESNHPIVLGPNNTNLPK
RetrocopyATENCISAVGKIMKFKPDCVNVEEVLPHWLSWLPLHEDKEEAVQTFNYLCDLIESNHPIVLGPNNTNLPK
ParentalIFSIIAEGEMHEAIKHEDPCAKRLANVVRQVQTSGGLWTECIAQLSPEQQAAIQELLNSA
IFSIIAEGEMHEAIKHEDPCAKRLANVVRQVQTSGGLWTECIAQLSPEQQAAIQE.LNSA
RetrocopyIFSIIAEGEMHEAIKHEDPCAKRLANVVRQVQTSGGLWTECIAQLSPEQQAAIQEFLNSA

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 1 .95 RPM 43 .85 RPM
SRP007412_cerebellum 0 .22 RPM 56 .00 RPM
SRP007412_heart 0 .29 RPM 51 .50 RPM
SRP007412_kidney 0 .39 RPM 49 .58 RPM
SRP007412_liver 0 .13 RPM 21 .64 RPM
SRP007412_testis 4 .11 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_745 retrocopy.

TSS - click to see more details

Pan troglodytes was not studied using FANTOM5 data.

Lab - click to see more details

retro_ptro_745 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_745 has 0 orthologous retrocopies within eutheria group .

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,


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