RetrogeneDB ID:

retro_mmus_681

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:10:118346273..118348679(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMUSG00000094519
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:Cdc5l
Ensembl ID:ENSMUSG00000023932
Aliases:Cdc5l, 1200002I02Rik, AA408004, PCDC5RP
Description:cell division cycle 5-like (S. pombe) [Source:MGI Symbol;Acc:MGI:1918952]


Retrocopy-Parental alignment summary:






>retro_mmus_681
ATGCCCCGGATTATGATCAAAGGAGGAGTGTGGAGGAACACGGAGGATGAAATTCTGAAAGCAGCGATAATGAAATATAG
GAAAAACCAGTGGTCTAGGATTGCCTCATTGCTGCATAGGAAATCGGCAAAGCAGTGCAAAGCCAGATGGTACGAATGGC
TGGATCCAAGTATTAAAAAAACTGAATGGTCCAGAGAAGAGGAAGAAAAACTCTTGCACCTGGCCAAGCTGATGCCAACG
CAGTGGAGGACCATTGCTCCAATCATAGGAAGAACAGCAGCCCAGTGCCTGGAACACTATGAATTCCTCCTGGACAGAAC
TGCTCAAAGGGACAATGAAGAGGAAACAACAGATGACCCCCGGAAGCTTAAGCCTGGAGAGATCGATCCAAACCCAGAGA
CCAAGCCAGCCCGGCCCGACCCGATTGACATGGATGAGGATGAACTTGAGATGCTCTCTGAGGCTCGAGCCCGTCTGGCC
AATACTCAAGGAAAGAAGGCTAAAAGGAAAGCAAGAGAAAAGCAGTTGGAAGAAGCCAGGCGCCTTGCTGCCCTCCAGAA
AAGACGAGAGCTTCGAGCAGCTGGCATAGAGATTCAGAAGAAAAGGAAAAGGAAGAGAGGCGTTGATTATAATGCTGAAA
TCCCATTTGAAAAAAAGCCAGCTCTTGGTTTTTATGATACTTCTGAGGAGAATTACCAGGCCCTTGATGCAGACTTCAGG
AAATTGCGACAGCAGGATCTTGACGGGGAGCTAAGATCTGAAAAAGAAGGAAGAGATAGAAAAACAGACAAACAGCGTTT
AAAAAGGAAAAAGGAGTCTGATTTACCATCAGCTATCCTCCAAACCAGTGGTGTCTCCGAGTTGACTAAAAAGAGAAGCA
AACTTGTGTTGCCTGCGCCTCAGATTTCAGATGCTGAACTCCAGGAAGTTGTCAAGGTAGGCCAGGCCAGTGAAGTCGCG
CGGCAGACGGCGGAGGAGTCAGGAATAACAAACTCTGCTTCTAGCACTCTCCTGTCTGAGTACAATGTCACAAACAACAG
CATCGCTCTGAGAACACCACGGACACCAGCCCCTCAAGACAGGATTCTACAGGAAGCTCAGAACCTCATGGCCTTGACCA
ATGTGGACACTCCGTTGAAAGGTGGGCTTAATACCCCACTGCATGAGAGTGACTTCTCTGGTGTGACCCCACAGCGGCAA
GTTGTGCAGACTCCAAATACAGTTCTGTCTACCCCTTTCAGGACTCCTTCTAATGGAGCTGAAGGGCTGACTCCCCGAAG
TGGAACAACTCCTAAACCAGTCACTAATGCCACCCCAGGTAGAACACCACTTAGAGACAAGTTAAACATTAATCCAGAGG
ATGGAATGGCAGACTACAGTGACCCCTCTTACGTGAAGCAGATGGAAAGAGAATCTCGTGAACATCTCCGTCTCGGGTTC
TTAGGCCTCCCTGCACCTAAGAACGATTTTGAAATCGTTCTGCCTGAAAATGCCGAGAAGGAACTGGAAGAACGTGAAAT
AGATGATACCTACATTGAAGATGCTGCTGATGTGGATGCTCGAAAGCAGGCCATCCGAGATGCTGAGCGTGTAAAGGAAG
TGAAACGAATGCACAAAGCCGTTCAGAAGGATCTTCCCAGGCCGTCTGAAGTAAATGAAACTATTTTAAGACCTTTCAAT
GTAGAACCACCTCTAACAGATTTACAGAAGAGCGAAGAACTGATCAAAAAAGAAATGATTACGATGCTTCATTATGATCT
TCTACATCATCCCTACGAACCATCTGGAAACAAAAAAGGAAAAAATGTTGGGTTAGCTACCAACGATTCAGAGCACATTA
CCTATCTTGAGCATAGCCCTTATGAGAAGTTCTCCAAAGAAGATCTGAAAAAGGCCCAGGGTGCTCTGGTACAAGAGATG
GAAGTGGTCAAACAAGGAATGAGCCATGGCGAACTCTCCAGTGAAGCTTACAACCAGGTGTGGGAGGAATGCTACAGTCA
AGTCCTCTCTCTTATTGCTCAGAGCCGCTACACTCGCGCTAATCTTGCTAGCAAAAAGGACAGAATTGAATCACTTGAAA
AGAGACTTGAGATAAACAGGGGTCACATGACAACAGAAGCCAAGAGAGCTGCAAAGATGGAAAAGAAGATGAAGATTTTG
CTTGGTGGATACCAGTCTCGTGCTATGGGGCTCATGAAACAGTTGAATGACTTATGGGACCAGATTGAGCAGGCTCACTT
GGAGCTACGCACTTTTGAAGAACTCAAGAAACGTGAAGACTCTGCTATTCCCCGTAGGCTAGAGTGTCTAAAGGAAGATG
TGCAGCTGCAACAGGAACGAGAGAAAGAGCTTCAACAGAGATACGCGGATTTGCTGATGGAGAAAGAGACTTTACAGGCA
AAGTTC

ORF - retro_mmus_681 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 97.13 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMPRIMIKGGVWRNTEDEILKAAVMKYGKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEK
MPRIMIKGGVWRNTEDEILKAA.MKY.KNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEK
RetrocopyMPRIMIKGGVWRNTEDEILKAAIMKYRKNQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWSREEEEK
ParentalLLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLDKTAQRDNEEETTDDPRKLKPGEIDPNPETKPARPD
LLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLD.TAQRDNEEETTDDPRKLKPGEIDPNPETKPARPD
RetrocopyLLHLAKLMPTQWRTIAPIIGRTAAQCLEHYEFLLDRTAQRDNEEETTDDPRKLKPGEIDPNPETKPARPD
ParentalPIDMDEDELEMLSEARARLANTQGKKAKRKAREKQLEEARRLAALQKRRELRAAGIEIQKKRKKKRGVDY
PIDMDEDELEMLSEARARLANTQGKKAKRKAREKQLEEARRLAALQKRRELRAAGIEIQKKRK.KRGVDY
RetrocopyPIDMDEDELEMLSEARARLANTQGKKAKRKAREKQLEEARRLAALQKRRELRAAGIEIQKKRKRKRGVDY
ParentalNAEIPFEKKPALGFYDTSEENYQALDADFRKLRQQDLDGELRSEKEGRDRKKDKQHLKRKKESDLPSAIL
NAEIPFEKKPALGFYDTSEENYQALDADFRKLRQQDLDGELRSEKEGRDRK.DKQ.LKRKKESDLPSAIL
RetrocopyNAEIPFEKKPALGFYDTSEENYQALDADFRKLRQQDLDGELRSEKEGRDRKTDKQRLKRKKESDLPSAIL
ParentalQTSGVSEFTKKRSKLVLPAPQISDAELQEVVKVGQASEVARQTAEESGITNSASSTLLSEYNVTNNSIAL
QTSGVSE.TKKRSKLVLPAPQISDAELQEVVKVGQASEVARQTAEESGITNSASSTLLSEYNVTNNSIAL
RetrocopyQTSGVSELTKKRSKLVLPAPQISDAELQEVVKVGQASEVARQTAEESGITNSASSTLLSEYNVTNNSIAL
ParentalRTPRTPASQDRILQEAQNLMALTNVDTPLKGGLNTPLHESDFSGVTPQRQVVQTPNTVLSTPFRTPSNGA
RTPRTPA.QDRILQEAQNLMALTNVDTPLKGGLNTPLHESDFSGVTPQRQVVQTPNTVLSTPFRTPSNGA
RetrocopyRTPRTPAPQDRILQEAQNLMALTNVDTPLKGGLNTPLHESDFSGVTPQRQVVQTPNTVLSTPFRTPSNGA
ParentalEGLTPRSGTTPKPVTNATPGRTPLRDKLNINPEDGMADYSDPSYVKQMERESREHLRLGLLGLPAPKNDF
EGLTPRSGTTPKPVTNATPGRTPLRDKLNINPEDGMADYSDPSYVKQMERESREHLRLG.LGLPAPKNDF
RetrocopyEGLTPRSGTTPKPVTNATPGRTPLRDKLNINPEDGMADYSDPSYVKQMERESREHLRLGFLGLPAPKNDF
ParentalEIVLPENAEKELEEREIDDTYIEDAADVDARKQAIRDAERVKEMKRMHKAVQKDLPRPSEVNETILRPLN
EIVLPENAEKELEEREIDDTYIEDAADVDARKQAIRDAERVKE.KRMHKAVQKDLPRPSEVNETILRP.N
RetrocopyEIVLPENAEKELEEREIDDTYIEDAADVDARKQAIRDAERVKEVKRMHKAVQKDLPRPSEVNETILRPFN
ParentalVEPPLTDLQKSEELIKKEMITMLHYDLLHHPYEPSGNKKGKNVGFATNNSEHITYLEHSPYEKFSKEDLK
VEPPLTDLQKSEELIKKEMITMLHYDLLHHPYEPSGN.....VG.ATN.SEHITYLEHSPYEKFSKEDLK
RetrocopyVEPPLTDLQKSEELIKKEMITMLHYDLLHHPYEPSGNXXXXXVGLATNDSEHITYLEHSPYEKFSKEDLK
ParentalKAQDALVQEMEVVKQGMSHGELSSEAYNQVWEECYSQVLYLPAQSRYTRANLASKKDRIESLEKRLEINR
KAQ.ALVQEMEVVKQGMSHGELSSEAYNQVWEECYSQVL.L.AQSRYTRANLASKKDRIESLEKRLEINR
RetrocopyKAQGALVQEMEVVKQGMSHGELSSEAYNQVWEECYSQVLSLIAQSRYTRANLASKKDRIESLEKRLEINR
ParentalGHMTTEAKRAAKMEKKMKILLGGYQSRAMGLMKQLNDLWDQIEQAHLELRTFEELKKHEDSAIPRRLECL
GHMTTEAKRAAKMEKKMKILLGGYQSRAMGLMKQLNDLWDQIEQAHLELRTFEELKK.EDSAIPRRLECL
RetrocopyGHMTTEAKRAAKMEKKMKILLGGYQSRAMGLMKQLNDLWDQIEQAHLELRTFEELKKREDSAIPRRLECL
ParentalKEDVQRQQEREKELQQRYADLLMEKETLQAKF
KEDVQ.QQEREKELQQRYADLLMEKETLQAKF
RetrocopyKEDVQLQQEREKELQQRYADLLMEKETLQAKF

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 0 .00 RPM 33 .13 RPM
SRP007412_cerebellum 0 .00 RPM 33 .39 RPM
SRP007412_heart 0 .00 RPM 22 .51 RPM
SRP007412_kidney 0 .00 RPM 27 .07 RPM
SRP007412_liver 0 .00 RPM 13 .85 RPM
SRP007412_testis 0 .00 RPM 25 .43 RPM

ChIP-Seq - click to see more details

RNA Polymerase II actvity near the 5' end of retro_mmus_681 was not detected

EST - click to see more details

No EST(s) were mapped for retro_mmus_681 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_mmus_681 retrocopy 5' end.

Lab - click to see more details

retro_mmus_681 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_681 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 2 parental genes, and 11 retrocopies.

Species Parental gene accession Retrocopies number
Myotis lucifugus ENSMLUG000000128031 retrocopy
retro_mluc_2063,
Mus musculus ENSMUSG00000023932 10 retrocopies
retro_mmus_604, retro_mmus_605, retro_mmus_675, retro_mmus_676, retro_mmus_677, retro_mmus_678, retro_mmus_679, retro_mmus_680, retro_mmus_681 , retro_mmus_682,


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