RetrogeneDB ID:

retro_mmus_1691

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:18:9544392..9545889(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Ddx31
Ensembl ID:ENSMUSG00000026806
Aliases:Ddx31, 5830444G11Rik, Gm997
Description:DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 31 [Source:MGI Symbol;Acc:MGI:2682639]


Retrocopy-Parental alignment summary:






>retro_mmus_1691
CAAAGGTTTTACACTGCCCAGACACTACTTAGGCCATTCACCTGGATTGTTCCTTGGCGTGTTGATGGGTTGAGAGAAGA
GGAAATCAGAAAAAAAAAAAAAAAAGCTAGATTCCACAAAGGCGTAAATATCCGTATCTCAACTCTGGCCATCTAGTGGA
TCATACAAAATCCACAAAGAACCTTCACTTTAACGGAATACAATGTCTGATTGTGGGTGAAGCAGACAGGATCTTGGATT
TGGGTTTTGAAAAGGACATCACAGTGATTCTGAATGCTGTAAATGCTGAGTGCCAGAAACAGCAGAATGGCCTCCTGTCA
GCGACACTCACAGAAGGTGTAACATGGTTAGCTGATATCAGCTTGCACAATCCAGTCAGTTATCTCTGCCCTGGACAAAA
GCTGGGACCAGCCCAGTCCTAAGGAAGTTGCTAGTACCCAGCTAGGCAGCTTTGCCATACCAGAGAGTCTCGACCAGCAT
GTGGTGTTGTTTCCCCGCAAGCTGTGCCTTGTCTGCCTTGCAGCCTTCATCCTGCAAAAGTACAAGTTTGAGAAGAACCA
GAAGATGATTGTCTTTTTCTCAAGTTGTGACCTGGTGGAGTTCCACTACAGCCTCTTCCTTCACACCCTGCTTTGTCACT
CAGGGACCCCTACTTCTGAGCAGCTGTCATCTGCCTCCTGTCCACTGAAATTCCTTTGGCTATATGGCAACATGGAGCAG
GAGGAAAGGACATCCGTGTTGCATGAGTTCTCCCATTCTGGAACTGGAGTCTTACTCTGCACAAATGTTGCATCTCGAGG
CTTGGATCTCCCACAAGTCACCTGGATTGTTCAGTACAGTGCTCTGTTTTCACCTGTGGAGAACATTCACTGCATTGGAA
GAACTGCCCGGATTGGCTGTCATGGGAGCAGCCTCCTCATTTTGGCTCCTTCAAAGACAGAATATGTCAACTCCTTGGTT
TCTCACAAAATCAATATTTCTGAGATTAAGATGGAAGATATTTTGTCTGTCCCGGCAAAGGATAATTGTTTTAAAAGGAG
ACAAAGGGGAGCCCAGAAATTCCATGCCATTGGCCCCCAAGAACTCTGAGAATGAGCCACAGTATTGCAGACAGTGTTTA
AAGATTACGTGCACTCCAGTCAGAAGATGGTCTCCTGGGCAAAGAAAGCCCTGCAGCCCTTCATCTGAGCCTATGCCATC
TACCCCAAGGAGCTAAAGTCCATCTTCCATATCTGATCCCTATACCTTGGGCATGTGGCTAAGAGTTTCAGACTAAGAGA
TGCTCCTAGCAGCCTCAGTGTCTGTGCTGTGAAGAAGGCACGCTTTAAAAGGCCTGACCTTCAGAAGAAGACACAGAGGA
GGAACCACCTTGTGCCTGCTGAAGTCCTGCACTCGGAACACTCAAGTGGACTGGAGGACAGTGGCACAAAGGGCAGAAGG
CAAGGCAAACAGCAGGGCCTTCAGGTGGCACCCAGCAAGCCTGTGCCATGGAGAGAA

ORF - retro_mmus_1691 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.84 %
Parental protein coverage: 72.05 %
Number of stop codons detected: 4
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalQSFDTVQKLLKPFT----WIVPGVLMGGEKRKSEKARLRKGINILIST-PGRLVDHIKSTKNLHFNRIRW
Q.F.T.Q.LL.PFT....W.V.G............AR..KG.NI.IST..G.LVDH.KSTKNLHFN.I..
RetrocopyQRFYTAQTLLRPFTWIVPWRVDGLREEEIXXXXXXARFHKGVNIRIST<SGHLVDHTKSTKNLHFNGIQC
ParentalLIVDEADRILDLGFEKDITVILNAVNAECQKRQNVLLSATLTEGVTRLVDISLHNPVS-ISVLDKNCNQP
LIV.EADRILDLGFEKDITVILNAVNAECQK.QN.LLSATLTEGVT.L.DISLHNPVS.IS.LDK...QP
RetrocopyLIVGEADRILDLGFEKDITVILNAVNAECQKQQNGLLSATLTEGVTWLADISLHNPVS>ISALDKSWDQP
ParentalNPKEVASIQLNSFAIPESLDQHVVLVPSKLRLVCLAAFILQKCKFEKNQKMIVFFSSCELVEFHYSLFLH
.PKEVAS.QL.SFAIPESLDQHVVL.P.KL.LVCLAAFILQK.KFEKNQKMIVFFSSC.LVEFHYSLFLH
RetrocopySPKEVASTQLGSFAIPESLDQHVVLFPRKLCLVCLAAFILQKYKFEKNQKMIVFFSSCDLVEFHYSLFLH
ParentalTLLCHSGTPTSEHLPSASWPLKFLRLHGNMEQEERTSVFHEFSHSETGVLLCTDVASRGLDLPQVTWIVQ
TLLCHSGTPTSE.L.SAS.PLKFL.L.GNMEQEERTSV.HEFSHS.TGVLLCT.VASRGLDLPQVTWIVQ
RetrocopyTLLCHSGTPTSEQLSSASCPLKFLWLYGNMEQEERTSVLHEFSHSGTGVLLCTNVASRGLDLPQVTWIVQ
ParentalYSAPSSPAEYIHRIGRTARIGCHGSSLLILAPSEAEYVNSLASHKINVGEIKMEDILAVLAKDDCFKRRQ
YSA..SP.E.IH.IGRTARIGCHGSSLLILAPS..EYVNSL.SHKIN..EIKMEDIL.V.AKD.CFKRRQ
RetrocopyYSALFSPVENIHCIGRTARIGCHGSSLLILAPSKTEYVNSLVSHKINISEIKMEDILSVPAKDNCFKRRQ
ParentalRGAQKSRASGPQEIRERATVLQTVFEDYVHSSQRMVSWAKKALQSFIRAYATYPKELKSIFHVRALHLGH
RGAQK..A.GPQE..E.ATVLQTVF.DYVHSSQ.MVSWAKKALQ.FI.AYA.YPKELKSIFH...L.LGH
RetrocopyRGAQKFHAIGPQEL*E*ATVLQTVFKDYVHSSQKMVSWAKKALQPFI*AYAIYPKELKSIFHI*SLYLGH
ParentalVAKSFGLRDAPRNLSVSAVKKASLKRPHPRRKTQRKQHLVPAEVLHSEHSSGLEGGATKCRKQGKQQGLQ
VAKSF.LRDAP..LSV.AVKKA..KRP....KTQR..HLVPAEVLHSEHSSGLE...TK.R.QGKQQGLQ
RetrocopyVAKSFRLRDAPSSLSVCAVKKARFKRPDLQKKTQRRNHLVPAEVLHSEHSSGLEDSGTKGRRQGKQQGLQ
ParentalVAPSKPGPWRE
VAPSKP.PWRE
RetrocopyVAPSKPVPWRE

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 6 .12 RPM
SRP007412_cerebellum 0 .00 RPM 5 .60 RPM
SRP007412_heart 0 .00 RPM 3 .67 RPM
SRP007412_kidney 0 .02 RPM 4 .20 RPM
SRP007412_liver 0 .00 RPM 4 .89 RPM
SRP007412_testis 0 .00 RPM 7 .23 RPM

ChIP-Seq - click to see more details

RNA Polymerase II actvity near the 5' end of retro_mmus_1691 was not detected

EST - click to see more details

No EST(s) were mapped for retro_mmus_1691 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_mmus_1691 retrocopy 5' end.

Lab - click to see more details

retro_mmus_1691 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_1691 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Mus musculus ENSMUSG00000026806 1 retrocopy
retro_mmus_1691 ,


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