RetrogeneDB ID:

retro_mmus_1468

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:16:53983927..53986084(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Mcm7
Ensembl ID:ENSMUSG00000029730
Aliases:Mcm7, AI747533, Mcmd7, mCDC47
Description:minichromosome maintenance deficient 7 (S. cerevisiae) [Source:MGI Symbol;Acc:MGI:1298398]


Retrocopy-Parental alignment summary:






>retro_mmus_1468
ATGGTGCTTAAGGACTCCGCGATCAAAAAAGAAAAAGTTAAGAAGTTCCTCCAAGAGTTTTATTACGAGAATGAGCTTGG
AAAGAAGCAGTTCAAGTATGGGACCCAGTTGGTTCATCTGGCTTATCGGGAACAAGTGGCACTGTATGTGGACCTGGATG
ACATAGCTGAAGATGACCCTGAGTTGGTCGACTCAATTTGCGAGAATGCCAAGCGCTACTCAAGACTGTTTGGTGATGTT
GTGCAAGAGCTTTTGCCTGAGTACAAGGAGAAGGAGGTGGTGAATAAGGATGTCCTAGATGTTTACATTGAACACCGGCT
GATGATGGAGCAGCGAAGCAGAGACCCTGGGGCAGTCCGGAACCCCCAAAACCAGTATTCTTCTGAACTCATGCGAAGAT
TTGAGTTGTATTTCTGAAGCCCAAGTAGCAGCAAGCCTCGAGTGATCCGGGAAGTACGAGCTGACTCTGTGGGGAAATTG
TTAACTGTGCGTGGCATTGTCACTCGTGTGTCTGAAGTCAAGCCCAGGATGGTGGTGGCCACATACACTTGTGATCAGCG
TGGGGCAGAGACCTACCAGCCAATCCAGTCTCCCACTTTCATGCCTCTGATCATGTGCCCCAGCCAGGAGTGCCAGACCA
ATCGCTCAGGGGGGCGGCTGTACCTACAGACTCGTGGCTCCAAATTTGTTAAATTCCAGGAAATGAAGATTCAAGAACAT
AGTGACCAAGTTCCTGTGGGAAACATTCCTCGGAGCATCACAGTGGTTCTAGAAGGTGAGAACACAAGAATTGCCCAGCC
TGGTGACCATGTCAGCGTCACTGGCATCTTCTTGCCAGTCCTGCGCACAGGATTCCAACAGATGGCACAGGGCTTACTCT
CAGAAACTTACCTGGAAGCCCACTGGATTGTGAAGATAACAAAGAGTGAATATGATGTCTCTGGGGCCGGAGAGCTGAGC
TCAGAGGAGCTGAAGCAGATTGCAGAGGAGGATTTCTATGAGAAGCTGGCTGCTTCTATTGCTCCGGAGATCTATGAACA
TGAAGATGTAAGGAAAGCACTGCTGCTGCTTCTGGTGGGTGGTGTGGACCAGTCTCCTTAAGGCATGAAGATCAGAGGAA
ACATCCACATCTGCCTTATGGGAGACCCTGGTGTGGCCAAATCTCAGCTCCTATCTTACATTGACCGTCTGGCACCCCGA
AGTCAGTACACAACAGGCCGTGGCTCCTCTGGTGTAGGGCTCACAGCAGCTGTGTTGAGAGACTCTGTGAGTGGAGAACT
GACTTTAGAGGGTGGTGCCCTGGTGCTGGCTGACCAGGGTGTGTGCTGTATTGATGAGTTTGACAAGATGGCCGAGGCTG
ACCGCACAGCCATCCATGAGGTTATGGAGCAGCAGACCATCTCCATCACCAAGGCAGGAATTCTCACCATGCTCAATGCC
CGATGTTCTATCCTGGCTGCGGCCAATCCTGCCTATGGCCGATATAATCCCCGCCGCAGTCTGGAGCAGAACATCCAGCT
TCCAGCTGCTCTGCTTTCTCAATTCGACCTCCTCTGGCTGATTCAAGACCGGCCCGACAGAGACAATGACCTCCGGTTGG
CCCAGCACATCACCTATGTCCACCAGCACAGCCGGTAGCCCCCTGCCCAATTTGAACTTTTGGACATGAAACTTATGAGA
CGGTACATAGCTATGTGCCACGAGAGACAGCCCACAGTGCCTGAATCTCTGGCTGACTACATCACTGCAGCATATGTGGA
GATGAGGCTAGAGGCCCGAGCCAGTAAGGATGCCACCTATACTTCTGCCCGGACTCTGCTGGCCATTCTCCGACTTTCCA
CTGCTCTGGCTCGACTTCGGATGGTAGACATTGTGGAGAAGGAAGATGTAAATGAAGCCATAAGGTTGATGGAGATGTCG
AAGGACTCCCTTCTAGGTGAAAAGGGACAAACAGCTAGGACCCAGAGGCCAGCAGATATGATATTTGCCACCATCCGTGA
ATTGGTGTCACGGGGGCGGAGTGTCCACTTTTCTGAGGCTAAACAGCGCTGCATATCTCATGGCTTCACACCAGCCCAGT
TCCAGGCAGCTCTGGATGAATATGAGGAGCTAAACGTCTGGCAGGTTAATACTTCTCGGACACGGATCACCTTTGTC

ORF - retro_mmus_1468 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 96.66 %
Parental protein coverage: 100. %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMALKDYAIEKEKVKKFLQEFYYENELGKKQFKYGTQLVHLAHREQVALYVDLDDIAEDDPELVDSICENA
M.LKD.AI.KEKVKKFLQEFYYENELGKKQFKYGTQLVHLA.REQVALYVDLDDIAEDDPELVDSICENA
RetrocopyMVLKDSAIKKEKVKKFLQEFYYENELGKKQFKYGTQLVHLAYREQVALYVDLDDIAEDDPELVDSICENA
ParentalKRYSRLFGDVVQELLPEYKEKEVVNKDVLDVYIEHRLMMEQRSRDPGAVRNPQNQYPSELMRRFELYFRG
KRYSRLFGDVVQELLPEYKEKEVVNKDVLDVYIEHRLMMEQRSRDPGAVRNPQNQY.SELMRRFELYF..
RetrocopyKRYSRLFGDVVQELLPEYKEKEVVNKDVLDVYIEHRLMMEQRSRDPGAVRNPQNQYSSELMRRFELYF*S
ParentalPSSSKPRVIREVRADSVGKLLTVRGIVTRVSEVKPRMVVATYTCDQCGAETYQPIQSPTFMPLIMCPSQE
PSSSKPRVIREVRADSVGKLLTVRGIVTRVSEVKPRMVVATYTCDQ.GAETYQPIQSPTFMPLIMCPSQE
RetrocopyPSSSKPRVIREVRADSVGKLLTVRGIVTRVSEVKPRMVVATYTCDQRGAETYQPIQSPTFMPLIMCPSQE
ParentalCQTNRSGGRLYLQTRGSKFVKFQEMKIQEHSDQVPVGNIPRSITVVLEGENTRIAQPGDHVSVTGIFLPV
CQTNRSGGRLYLQTRGSKFVKFQEMKIQEHSDQVPVGNIPRSITVVLEGENTRIAQPGDHVSVTGIFLPV
RetrocopyCQTNRSGGRLYLQTRGSKFVKFQEMKIQEHSDQVPVGNIPRSITVVLEGENTRIAQPGDHVSVTGIFLPV
ParentalLRTGFQQMAQGLLSETYLEAHWIVKMTKSDDDVSGAGELSSEELKQIAEEDFYEKLAASIAPEIYGHEDV
LRTGFQQMAQGLLSETYLEAHWIVK.TKS..DVSGAGELSSEELKQIAEEDFYEKLAASIAPEIY.HEDV
RetrocopyLRTGFQQMAQGLLSETYLEAHWIVKITKSEYDVSGAGELSSEELKQIAEEDFYEKLAASIAPEIYEHEDV
ParentalKKALLLLLVGGVDQSPQGMKIRGNIHICLMGDPGVAKSQLLSYIDRLAPRSQYTTGRGSSGVGLTAAVLR
.KALLLLLVGGVDQSP.GMKIRGNIHICLMGDPGVAKSQLLSYIDRLAPRSQYTTGRGSSGVGLTAAVLR
RetrocopyRKALLLLLVGGVDQSP*GMKIRGNIHICLMGDPGVAKSQLLSYIDRLAPRSQYTTGRGSSGVGLTAAVLR
ParentalDSVSGELTLEGGALVLADQGVCCIDEFDKMAEADRTAIHEVMEQQTISIAKAGILTTLNARCSILAAANP
DSVSGELTLEGGALVLADQGVCCIDEFDKMAEADRTAIHEVMEQQTISI.KAGILT.LNARCSILAAANP
RetrocopyDSVSGELTLEGGALVLADQGVCCIDEFDKMAEADRTAIHEVMEQQTISITKAGILTMLNARCSILAAANP
ParentalAYGRYNPRRSLEQNVQLPAALLSRFDLLWLIQDRPDRDNDLRLAQHITYVHQHSRQPPAQFEPLDMKLMR
AYGRYNPRRSLEQN.QLPAALLS.FDLLWLIQDRPDRDNDLRLAQHITYVHQHSR.PPAQFE.LDMKLMR
RetrocopyAYGRYNPRRSLEQNIQLPAALLSQFDLLWLIQDRPDRDNDLRLAQHITYVHQHSR*PPAQFELLDMKLMR
ParentalRYIAMCHERQPTVPESLADYITAAYVEMRREARASKDATYTSARTLLAILRLSTALARLRMVDIVEKEDV
RYIAMCHERQPTVPESLADYITAAYVEMR.EARASKDATYTSARTLLAILRLSTALARLRMVDIVEKEDV
RetrocopyRYIAMCHERQPTVPESLADYITAAYVEMRLEARASKDATYTSARTLLAILRLSTALARLRMVDIVEKEDV
ParentalNEAIRLMEMSKDSLLGEKGQTARTQRPADVIFATIRELVSRGRSVHFSEAEQRCISRGFTPAQFQAALDE
NEAIRLMEMSKDSLLGEKGQTARTQRPAD.IFATIRELVSRGRSVHFSEA.QRCIS.GFTPAQFQAALDE
RetrocopyNEAIRLMEMSKDSLLGEKGQTARTQRPADMIFATIRELVSRGRSVHFSEAKQRCISHGFTPAQFQAALDE
ParentalYEELNVWQVNTSRTRITFV
YEELNVWQVNTSRTRITFV
RetrocopyYEELNVWQVNTSRTRITFV

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 .02 RPM 8 .69 RPM
SRP007412_cerebellum 0 .09 RPM 17 .80 RPM
SRP007412_heart 0 .06 RPM 8 .00 RPM
SRP007412_kidney 0 .21 RPM 12 .78 RPM
SRP007412_liver 0 .11 RPM 8 .27 RPM
SRP007412_testis 3 .66 RPM 120 .66 RPM

ChIP-Seq - click to see more details

RNA Polymerase II actvity near the 5' end of retro_mmus_1468 was not detected

EST - click to see more details

No EST(s) were mapped for retro_mmus_1468 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_mmus_1468 retrocopy 5' end.

Lab - click to see more details

retro_mmus_1468 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_1468 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.

Species Parental gene accession Retrocopies number
Macropus eugenii ENSMEUG000000109961 retrocopy
retro_meug_1233,
Mus musculus ENSMUSG00000029730 1 retrocopy
retro_mmus_1468 ,
Tupaia belangeri ENSTBEG000000141381 retrocopy
retro_tbel_1695,


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