RetrogeneDB ID:

retro_mmus_429

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:1:33836124..33838680(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMUSG00000081402
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:Rbm10
Ensembl ID:ENSMUSG00000031060
Aliases:Rbm10, E430039K10Rik
Description:RNA binding motif protein 10 [Source:MGI Symbol;Acc:MGI:2384310]


Retrocopy-Parental alignment summary:






>retro_mmus_429
ATGGAGTATGAAAGACGAGGTGGTCGTGGTGACAGAACTGGCCGCTATGGAGCCACTGATCGTTCACAGGATGATAGTGG
AGAGAACCGCAGCCGGGACCATGATTATAGAGACATGGAGTACCGTTCATACCCACGAGAGTATGGCAGACAGGAGGGCA
AGCATGAGTATGACGACTCATCTGAAGAGCAAAGTGCAGAGATCCGTGGACAGCTGAAGTCCCATGGAGTCAAAGCACGG
GAGGTCCGGCTGATGCGGAACAAATCCTCAGGTCAGAGCCAGGGCTTCGCCTTCGTCGAGTTTAGTCACTTGCAGGACAC
TACACGATGGATGGAAGCCAATCAGCACTCCCTCAACATCCTGGGCCAGAAGGTATCCATGCATTACAGCGACCCCAACC
CCAAGATCAATGAGAACTGGCTGTGTAATAAGTGTGGTGTCCAGAACTTCAAGCGCCGAGAGAAGTGCTTCAAATGTGGT
ATGCCCAAGTCAGAGGCAGAGCAGAAGCTGCCCCTTGGCACTCGGCTGGATCAGCAGGCACTGCCACTGGGTAGGCGGGA
GCTAAGCCAGGGCTTACTCCCACAGCTGCAGCCCTACCAGGCCCAGGGAGTGCTAACCTCACAAGCCCTGTCACAGGGCT
CAGAGCCAAGCTCCGAGAACGCCAGTGACACCATTATTTTACGAAACTTGAACCCACACAGCACTATGGACTCCATCCTC
GGGGCCCTAGCACCCTATGCGGTGCTGTCCTCTTCCAATGTGCGTGTTATCAAGGACAAACAGACTCAGCTGAACCGAGG
CTTCGCCTTCATCCAGCTCTCCACCATCGTGGAAGCAGCGCAGCTGCTACAGATCCTGCAGGCCCTGCACCCTCCGCTCA
CCATCGATGGCAAGACTATCAACGTGGAGTTTGCCAAGGGTTCTAAGAGGGGTATGGCCTCCAATGAAGGCAGTCGCATC
AATGCTGCCTCTGTGGCCAGTGCTGCCATTGCTGCTGCCCAGTGGGCAATCTCACAGGCCTCCCAGGGTGGAGAGAGTGC
CTGGGCTGCCCCCGAGGAGCCACCACTTGACTACAGCTACTACCAACAGGATGAGGGCTATGGCAGCAGCCAGGGAACAG
ATTCCCTCTATGCCCATGGCTACCTTAAGGACAGCAAGGGCCCTGGCATGACTGGGACCAAAGGGGACCCAGCTGGAGCA
GGTCCTGAGACCTCCCTTGAGGCTGGAGCAGACTCTGTGTCACTTCAGGCTTTCTCTCCAGCCCAGCCTGGTGCTGCCCC
TGGGCTCTATCAGCAATCAGCTGAGGGGGGCAGTGGCCAGAGCACTGCTACCAACAGCCAGTCATATACCATCATATCAC
CTGCTGTGCTCAAGTCTGAGCTTCAGAGCCCTACTCATCCCAGCTCTGCCTTACCACCGGCTTCCAGTCCCACTGCCCTA
GAGTCCTACAGCCAGTACCCTGTTCCTGATGTCTCTACTTACCAATATGATGAGACATCTGGCTACTACTATGACTCCCA
GACTGGTCTATACTATGATCCCAATTACCAGTATTACTACAATGCTCAGAGTCAGCAGTACCTATACTGGGATGGGGAGT
GGCGGACCTACATACCTGCCTTGGAGCAGTCTGCTGATGGACATAAGGACATGAGGGCATCATCAAAGGAGGGAAAAGAG
AAGAAAGAGAAGCATAAGACAAAGACAGCCCAACAGATTGCCAAGGACATGGAGCGGTGGGTACGCAGTCTCAATAAGCA
AAAAGAAAACTTCAAAAACAGCTTCCAGCCTATTAGTGCTCTACGAGATGATGAAAGGCGGGAATCGGCCACTGCAGATG
CAGGCTATGCCATCCTTGAGAAGAAGGGAGCGCTAGCTGAGAGACAGCACACCAGCAAGGATCTCCCAAAGCTGGCCAGT
GATGACCGCCCAAGCCCACCTCGAGGGCTGGTGGCAGCCTATAGTGGGGAGAGTGACAGTGAGGAGAAACAGGAGCGAGG
AGGTCCTGAACGGGAAGAAAAGCTCACAGACTGGCAGAAGCTAGCCTGTCTGCTCTGCCGCCGCCAGTTTCCCAGCAAGG
AGGCACTCATCCGGCACCAGCAGCTCTCTGGGCTCCACAAGCAAAACCTTGAGATTCATCGGCGAGCCCACTTGTCAGAA
AACGAATTGGAAGCACTAGAGAAAAATGACACGGAGCAAATGAAGTATCGAGACCGTGCAGCTGAACGCAGGGAGAAGTA
TGGTATCCCTGAGCCACCAGAGCCCAAACGGAGGAAGTATGGTGGCATATCTTCAGCCTCTGTGGACTTTGAACAACCCA
CTCGGGATGGATTAGGCAGTGACAACATTGGCAGTCGAATGCTCCAGGCCATGGGCTGGAAAGAAGGCAGTGGTCTGGGC
CGCAAGAAACAGGGCATTGTGACACCCATTGAGGCCCAAACACGAGTTCCAGGTTCTGGCCTGGGTGCCAGGGGCAGTTC
CTATGGGGTCACCTCAACAGAATCCTATAAGAAGACACTGCACAAGACAATGGTGACCCGCTTCAATGAGGCCCAG

ORF - retro_mmus_429 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 95.31 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMEYERRGGRGDRTGRYGATDRSQDDSGENRSRDHDYRDMDYRSYPREYGSQEGKHEYDDSSEEQSAEIRG
MEYERRGGRGDRTGRYGATDRSQDDSGENRSRDHDYRDM.YRSYPREYG.QEGKHEYDDSSEEQSAEIRG
RetrocopyMEYERRGGRGDRTGRYGATDRSQDDSGENRSRDHDYRDMEYRSYPREYGRQEGKHEYDDSSEEQSAEIRG
ParentalQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSDPKPKINEDW
QL.SHGV.AREVRLMRNKSSGQS.GFAFVEFSHLQD.TRWMEANQHSLNILGQKVSMHYSDP.PKINE.W
RetrocopyQLKSHGVKAREVRLMRNKSSGQSQGFAFVEFSHLQDTTRWMEANQHSLNILGQKVSMHYSDPNPKINENW
ParentalLCNKCGVQNFKRREKCFKCGVPKSEAEQKLPLGTRLDQQALPLGGRELSQGLLPLPQPYQAQGVLTSQAL
LCNKCGVQNFKRREKCFKCG.PKSEAEQKLPLGTRLDQQALPLG.RELSQGLLP..QPYQAQGVLTSQAL
RetrocopyLCNKCGVQNFKRREKCFKCGMPKSEAEQKLPLGTRLDQQALPLGRRELSQGLLPQLQPYQAQGVLTSQAL
ParentalSQGSEPSSENANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTIVEAA
SQGSEPSSENA.DTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTIVEAA
RetrocopySQGSEPSSENASDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTIVEAA
ParentalQLLQILQALHPPLTIDGKTINVEFAKGSKRDMASNEGSRINAASVASTAIAAAQWAISQASQGGESAWAA
QLLQILQALHPPLTIDGKTINVEFAKGSKR.MASNEGSRINAASVAS.AIAAAQWAISQASQGGESAWAA
RetrocopyQLLQILQALHPPLTIDGKTINVEFAKGSKRGMASNEGSRINAASVASAAIAAAQWAISQASQGGESAWAA
ParentalPEEPPVDYSYYQQDEGYGSSQGTDSLYAHGYLKNSKGPGMTGTKGDPAGTGPEASLEAGADSVSLQAFSR
PEEPP.DYSYYQQDEGYGSSQGTDSLYAHGYLK.SKGPGMTGTKGDPAG.GPE.SLEAGADSVSLQAFS.
RetrocopyPEEPPLDYSYYQQDEGYGSSQGTDSLYAHGYLKDSKGPGMTGTKGDPAGAGPETSLEAGADSVSLQAFSP
ParentalAQPGAAPGLYQQSAEGSSGQSTATNSQSYTIISPAVLKAELQSPTQPSSSAFPPATSPTAPEAYSQYPVP
AQPGAAPGLYQQSAEG.SGQSTATNSQSYTIISPAVLK.ELQSPT.P.SSA.PPA.SPTA.E.YSQYPVP
RetrocopyAQPGAAPGLYQQSAEGGSGQSTATNSQSYTIISPAVLKSELQSPTHP-SSALPPASSPTALESYSQYPVP
ParentalDVSTYQYDETSGYYYDPQTGLYYDPNSQYYYNAQSQQYLYWDGERRTYIPALEQSADGHKDTGASSKEGK
DVSTYQYDETSGYYYD.QTGLYYDPN.QYYYNAQSQQYLYWDGE.RTYIPALEQSADGHKD..ASSKEGK
RetrocopyDVSTYQYDETSGYYYDSQTGLYYDPNYQYYYNAQSQQYLYWDGEWRTYIPALEQSADGHKDMRASSKEGK
ParentalEKKEKHKTKTAQQIAKDMERWARSLNKQKENFKNSFQPISALRDDERRESATADAGYAILEKKGALAERQ
EKKEKHKTKTAQQIAKDMERW.RSLNKQKENFKNSFQPISALRDDERRESATADAGYAILEKKGALAERQ
RetrocopyEKKEKHKTKTAQQIAKDMERWVRSLNKQKENFKNSFQPISALRDDERRESATADAGYAILEKKGALAERQ
ParentalHTSMDLPKLASDDRPSPPRGLVAAYSGESDSEEEQERGGPEREEKLTDWQKLACLLCRRQFPSKEALIRH
HTS.DLPKLASDDRPSPPRGLVAAYSGESDSEE.QERGGPEREEKLTDWQKLACLLCRRQFPSKEALIRH
RetrocopyHTSKDLPKLASDDRPSPPRGLVAAYSGESDSEEKQERGGPEREEKLTDWQKLACLLCRRQFPSKEALIRH
ParentalQQLSGLHKQNLEIHRRAHLSENELEALEKNDMEQMKYRDRAAERREKYGIPEPPEPKRRKYGGISTASVD
QQLSGLHKQNLEIHRRAHLSENELEALEKND.EQMKYRDRAAERREKYGIPEPPEPKRRKYGGIS.ASVD
RetrocopyQQLSGLHKQNLEIHRRAHLSENELEALEKNDTEQMKYRDRAAERREKYGIPEPPEPKRRKYGGISSASVD
ParentalFEQPTRDGLGSDNIGSRMLQAMGWKEGSGLGRKKQGIVTPIEAQTRVRGSGLGARGSSYGVTSTESYKET
FEQPTRDGLGSDNIGSRMLQAMGWKEGSGLGRKKQGIVTPIEAQTRV.GSGLGARGSSYGVTSTESYK.T
RetrocopyFEQPTRDGLGSDNIGSRMLQAMGWKEGSGLGRKKQGIVTPIEAQTRVPGSGLGARGSSYGVTSTESYKKT
ParentalLHKTMVTRFNEAQ
LHKTMVTRFNEAQ
RetrocopyLHKTMVTRFNEAQ

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 34 .97 RPM
SRP007412_cerebellum 0 .13 RPM 51 .41 RPM
SRP007412_heart 0 .03 RPM 24 .00 RPM
SRP007412_kidney 0 .12 RPM 30 .88 RPM
SRP007412_liver 0 .00 RPM 20 .56 RPM
SRP007412_testis 0 .50 RPM 9 .70 RPM

ChIP-Seq - click to see more details

RNA Polymerase II actvity near the 5' end of retro_mmus_429 was not detected

EST - click to see more details

No EST(s) were mapped for retro_mmus_429 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_mmus_429 retrocopy 5' end.

Lab - click to see more details

retro_mmus_429 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_429 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 1 parental gene, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Mus musculus ENSMUSG00000031060 2 retrocopies
retro_mmus_2491, retro_mmus_429 ,




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