RetrogeneDB ID:

retro_itri_32

Retrocopy
location
Organism:Squirrel (Ictidomys tridecemlineatus)
Coordinates:JH393349.1:619873..623191(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSSTOG00000019572
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:IPO5
Ensembl ID:ENSSTOG00000011164
Aliases:None
Description:importin 5 [Source:HGNC Symbol;Acc:6402]


Retrocopy-Parental alignment summary:






>retro_itri_32
ATGGCGGCGGCCGGGTCTGCAGGGGTGCCGGCGATTGTGTCGGAAAAGCAAGAGTTCTACCAGCTTCTGAAGAACCTGAT
CAATCCAAGCTGCATGGTGCGGAGGCAAGCAGAGGAAATCTATGAAAATATCCCAGGTCTGTGTAAGACTACATTCCTCT
TAGATGCCGTCAGAAATAGAAGAGCAGGTTATGAGGTGAGACAAATGGCTGCCGCACTGCTACGCCGGCTTTTGTCCTCT
GGGTTTGAGGAGGTCTACCCAAATCTGCCTTCTGATGTTCAGAGAGATGTCAAGATTGAACTGATACTGGCTGTTAAGTT
AGAAACACATGCTAGCATGAGGAAAAAGCTCTGTGATATTTTTGCGGTGCTGGCCAGGAATTTGATAGATGAGGATGGCA
CTAACCATTGGCCAGAAGGTCTGAAGTTCCTTATTGATTCGATCTACTCTAAAAATGTGGTTCTGTGGGAAGTTGCACTT
CACGTCTTCTGGCACTTTCCTGGAATTTTTGGGAACCAAGATCGGCACGATTTGGATATCATCAAAAGGTTGTTGGACCA
GTGTATTCAAGATCAAGAACATCCAGCAATCAGGACATTATCTGCTAGAGCTGCAGCTGCATTTGTACTTGCTAATGAGA
ATAATATTGCTCTTTTCAAAGACTTTGCAGACTTGCTTCCTGGAATCTTACAAGCTGTCAATGATTCATGCTACCAGGAT
GATGATTCAGTGCTAGAATCCCTTGTTGAGATTGCTGATACAGTACCTAAATATTTGGGTCCTTATTTAGAAGATACTCT
ACAGTTGAGCCTGAAGTTATGTGGAGATTCTAGACTTAGTAACCTGCAACGCCAGCTGGCCCTTGAAGTAATAGTGACCT
TGTCTGAAACTGCAACTCCAATGTTGAAAAAACATACAAATATTATTGCACAGGCAGTTCCTCATATATTAGCAATGATG
GTTGATCTACAAGATGATGAGGACTGGGTAAATGCTGATGAAATGGAAGAAGATGATTTTGACAGCAATGCAGTTGCTGC
TGAGAGTGCTCTAGACAGACTGGCTTGTGGGCTTGGTGGAAAAGTTGTTTTACCAATGACCAAGGAGCATATCATGCAAA
TGCTTCAGAGCCCTGACTGGAAGTATCGACATGCTGGATTAATGGCCTTATCTGCCATTGGAGAAGGTTGTCATCAGCAA
ATGGAACCAATTCTAGATGAAACTGTTAACTCTGTTTTACTTTTTCTTCAGGATCCTCATCCAAGGGTGAGGGCTGCAGC
CTGTACTACACTTGGACAAATGGCTACAGATTTTGCACCTAGTTTCCAAAAGAAATTCCATGAAACAGTGATTGCAGCTT
TGTTGCGTACGATGGAAAATCAAGGTAATCAGCGTGTACAATCTCATGCAGCTTCTGCTCTTATTATTTTTATTGAAGAT
TGCCCCAAGTCATTATTAGTTCTCTATTTGGATAGTATGGTGAAAAATCTACATTCTATCTTGGTGATTAAACTTCAAGA
GTTGATTCGGAATGGAACTAAGTTGGCCTTGGAACAGCTTGTGACAACCATTGCCTCAGTTGCAGATACGATAGAAGAAA
AATTTATTCCATATTATGACATATTTATGCCCTCACTAAAGCATATTGTTGAGCTTGCTGTTCAGAAGGAACTCAAGCTT
CTGAGAGGAAAAACTATTGAGTGCATTAGCCATGTTGGTCTTGCTGTTGGGAAGGAAAAATTTATGCAAGATGCATCAAA
TGTGATGCAGCTATTGTTGAAGACACAATCAGACTTGAATAATATGGAAGATGATGACCCTCAGACCTCTTACATGGTTT
CAGCTTGGGCTAGAATGTGTAAAATTCTTGGAAAAGATTTCCAACAGTACCTTCCACTGGTTATTGAGCCTCTTATTAAG
ACTGCTTCAGCTAAACCTGATGTCGCTCTCTTAGACACACAAGATGTAGAGAATATGAGTGATGATGATGGATGGCAATT
TGTAAATCTTGGAGACCAGCAGAGTTTTGGAATTAAAACTTCTGGACTTGAAGCAAAAGCAACTGCTTGCCAGATGCTGG
TTTACTATGCTAAGGAGTTAAGAGAAGGATTTGTGGAGTATACAGAACAAGTTGTGAAATTAATGGTTCCCTTACTGAAA
TTTTATTTCCATGACAATGTTCGAGTGGCAGCTGCAGAGTCCATGCCTTTTCTCCTGGAATGTTCAAGAATTCGTGGTCC
AGAGTATCTTTCACAGATGTGGCAGTTCATATGTGACCCCTTAATCAAGGCTATAGGAACTGAACCTGATACTGATGTAC
TCTCAGAAATAATGAATTCTTTTGCAAAGTCCATTGAGGTAATGGGAGATGGTTGCCTCAATGATGAACACTTGGAAGAA
CTGGGAGGAATACTGAAAGCAAAACTTGAAGGACATTTTAAAAACCAAGAATTACGACAGGTTAAAAGACAAGAAGAAAA
CTATGACCAACAGGTTGAGATGTCTCTGCAAGATGAGGATGAATGTGATGTTTATATTCTGACCAAAGTATCAGATATTT
TGCACTCATTATTTAGTACTTATAAAGAAAAGATTTTACCATGGTTTGAACAGCTGCTTCCATTAATTGTAAATCTAATA
TGTTCAAGTAGACCATGGCCAGACAGACAGTGGGGATTATGCATATTTGATGATATCATAGAGCACTGTAGCCCAACCTC
ATTTAAATATGTAGAATATTTTCGGTGGCCAATGCTACTAAATATGCGAGATAACAACCCTGAAGTCAGGCAAGCTGCTG
CTTATGGCCTGGGTGTTATGGCACAGTTTGGTGGAGATGATTATCGTTCTCTATGTTCAGAAGCTGTTCCACTACTGGTA
AAAGTTATTAAGTGTGCAAATTCCAAAACCAAAAAAAATGTCATTGCGACAGAGAACTGCATCTCAGCAATAGGGAAGAT
TTTGAAGTTTAAGCCTAACTGTGTAAATGTAGATGAAGTTCTTCCACACTGGTTATCATGGCTTCCACTGCATGAAGATA
AAGAGGAAGCGATTCAGACTTTGAGTTTTCTCTGTGACTTAATTGAAAGTAACCACCCAGTTGTAGTTGGTCCAAATAAT
TCTAATCTCCCCAAAATAATTAGTATAATTGCAGAAGGAAAAATTAATGAGACTATTAGCTATGAAGATCCTTGTGCCAA
ACGCCTTGCTAATGTTGTTCGTCAGGTACAAACATCTGAAGAATTATGGTCAGAATGTATATCGCAACTTGATAATGAAC
AGCAGGAAGCCTTACAGGAATTGCTAAATTTTGCTTGA

ORF - retro_itri_32 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.28 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalMLQNPDWKYRHAGLMALSAIGEGCHQQMEGILNEIVNFVLLFLQDPHPRVRYAACNAVGQMATDFAPGFQ
MLQ.PDWKYRHAGLMALSAIGEGCHQQME.IL.E.VN.VLLFLQDPHPRVR.AAC...GQMATDFAP.FQ
RetrocopyMLQSPDWKYRHAGLMALSAIGEGCHQQMEPILDETVNSVLLFLQDPHPRVRAAACTTLGQMATDFAPSFQ
ParentalKKFHEKVIAALLQTMEDQGNQRVQAHAAAALINFTEDCPKSLLIPYLDNLVKHLHSIMVLKLQELIQKGT
KKFHE.VIAALL.TME.QGNQRVQ.HAA.ALI.F.EDCPKSLL..YLD..VK.LHSI.V.KLQELI..GT
RetrocopyKKFHETVIAALLRTMENQGNQRVQSHAASALIIFIEDCPKSLLVLYLDSMVKNLHSILVIKLQELIRNGT
ParentalKLVLEQVVTSIASVADTAEEKFVPYYDLFMPSLKHIVENAVQKELRLLRGKTIECISLIGLAVGKEKFMQ
KL.LEQ.VT.IASVADT.EEKF.PYYD.FMPSLKHIVE.AVQKEL.LLRGKTIECIS..GLAVGKEKFMQ
RetrocopyKLALEQLVTTIASVADTIEEKFIPYYDIFMPSLKHIVELAVQKELKLLRGKTIECISHVGLAVGKEKFMQ
ParentalDASDVMQLLLKTQTDFNDMEDDDPQISYMISAWARMCKILGKEFQQYLPVVMGPLMKTASIKPEVALLDT
DAS.VMQLLLKTQ.D.N.MEDDDPQ.SYM.SAWARMCKILGK.FQQYLP.V..PL.KTAS.KP.VALLDT
RetrocopyDASNVMQLLLKTQSDLNNMEDDDPQTSYMVSAWARMCKILGKDFQQYLPLVIEPLIKTASAKPDVALLDT
ParentalQDMENMSDDDGWEFVNLGDQQSFGIKTAGLEEKSTACQMLVCYAKELKEGFVEYTEQVVKLMVPLLKFYF
QD.ENMSDDDGW.FVNLGDQQSFGIKT.GLE.K.TACQMLV.YAKEL.EGFVEYTEQVVKLMVPLLKFYF
RetrocopyQDVENMSDDDGWQFVNLGDQQSFGIKTSGLEAKATACQMLVYYAKELREGFVEYTEQVVKLMVPLLKFYF
ParentalHDDILYSTAESMPLLLECARVRGPEYLTQMWHFMCDALIKAIGTEPDSDVLSEIMHSFAKCIEVMGDGCL
HD......AESMP.LLEC.R.RGPEYL.QMW.F.CD.LIKAIGTEPD.DVLSEIM.SFAK.IEVMGDGCL
RetrocopyHDNVRVAAAESMPFLLECSRIRGPEYLSQMWQFICDPLIKAIGTEPDTDVLSEIMNSFAKSIEVMGDGCL
ParentalNNEHFEELGGILKAKLEEHFKNQELRQVKRQDEDYDEQVEESLQDEDDNDVYILTKVSDILHSIFSSYKE
N.EH.EELGGILKAKLE.HFKNQELRQVKRQ.E.YD.QVE.SLQDED..DVYILTKVSDILHS.FS.YKE
RetrocopyNDEHLEELGGILKAKLEGHFKNQELRQVKRQEENYDQQVEMSLQDEDECDVYILTKVSDILHSLFSTYKE
ParentalKVLPWFEQFLPLIVNLICPHRPWPDRQWGLCIFDDVIEHCSPASFKYAEYFLRPMLQYVCDNSPEVRQAA
K.LPWFEQ.LPLIVNLIC..RPWPDRQWGLCIFDD.IEHCSP.SFKY.EYF..PML....DN.PEVRQAA
RetrocopyKILPWFEQLLPLIVNLICSSRPWPDRQWGLCIFDDIIEHCSPTSFKYVEYFRWPMLLNMRDNNPEVRQAA
ParentalAYGLGVMAQYGGDNYRPFCTEALPLLVRVIQSADSKTKENVNATENCISAVGKIMKYKPDCVNVEEVLPH
AYGLGVMAQ.GGD.YR..C.EA.PLLV.VI..A.SKTK.NV.ATENCISA.GKI.K.KP.CVNV.EVLPH
RetrocopyAYGLGVMAQFGGDDYRSLCSEAVPLLVKVIKCANSKTKKNVIATENCISAIGKILKFKPNCVNVDEVLPH
ParentalWLSWLPLHEDKEEAVQTFNYLCDLIESNHPIVLGPNNTNLPKIFSIIAEGELHEAIKHEDPCAKRLANVV
WLSWLPLHEDKEEA.QT...LCDLIESNHP.V.GPNN.NLPKI.SIIAEG...E.I..EDPCAKRLANVV
RetrocopyWLSWLPLHEDKEEAIQTLSFLCDLIESNHPVVVGPNNSNLPKIISIIAEGKINETISYEDPCAKRLANVV
ParentalRQVQTSGGLWTECIAQLSPEQQAAIQELLNSA
RQVQTS..LW.ECI.QL..EQQ.A.QELLN.A
RetrocopyRQVQTSEELWSECISQLDNEQQEALQELLNFA

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






RNA-Seq - click to see more details

Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Ictidomys tridecemlineatus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_itri_32 retrocopy.

TSS - click to see more details

Ictidomys tridecemlineatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_itri_32 was not experimentally validated.

Retrocopy orthology:
Ictidomys tridecemlineatus 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 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 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 ENSSTOG00000011164 1 retrocopy
retro_itri_32 ,


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