RetrogeneDB ID:

retro_mmus_155

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:12:88284534..88286055(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMUSG00000094635
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:Rexo1
Ensembl ID:ENSMUSG00000047417
Aliases:Rexo1, 1700021P10Rik, 2610511M11Rik, AW050347, EloA-BP1, Tceb3bp1
Description:REX1, RNA exonuclease 1 homolog (S. cerevisiae) [Source:MGI Symbol;Acc:MGI:1914182]


Retrocopy-Parental alignment summary:






>retro_mmus_155
TACCTGCGAGCACAGCAAGCACTAAGGGAGTTGGCCAGTTGGCTACAGGCCACCCCAGGGTCAACTGAGGGGCTTTCCAA
GAGGGTTCTCCCTGCCAGCAGCAGCCAGGTTTCCCACAGTCCCAAACCTGGCAGTCAGCCACTGAAGACACCCACGCTGT
CAAGGATGGCATCTAAGATAACAACCAACTTCACCCCCAAATGCATCGTCCACAGCCCATCACTCCAGAGTCTAAAGAAG
CCCGTTATCCCGAAAGAATTTGGCGGCACGGTCCCCATTGTGGTCCCCCAAGGTTATCTCCACCTGTTCATTGAGGAGTT
TCTCAAGTTCTGTTCGTCCAAACAGGAGGCCATTGAGAAGGCCCTGAACGGGGAAAAGGTGGCATATGACCTCAGTTCCA
GCAAGAACATATACCTGAATGTGGCCGTGAACATCCTTAAGAAGCTAAGGGGGCTGGCCCCCAACACCATGCTCAACCTC
AGCAAAGCCAGTGGCCGCAGGGTTGTGTCCCATGAGGTTGTACTGGGGGGCAAATTGGCAGCTAAAACCAGCTTCTCACT
GAACAGCCCCAGCAGCCAGCAGGTAGAGGAGCTGAGAGCACTGATACCCAGTGCCTCTGCAGGGTATGCCCTGTACTGCC
ACCTTAGGGAGTACTTACTCACTCAGGAGCAGCTGAAGGAGAATGGCTACCCCTTCCCCCACCCAGAGCGTCCAGGGGCT
GCAGTCATCTTCACTGCCAAGGAGAAGAAGCCCAAGGACCCCTCCCGCAGAATTTGCCATCGCTGTGGCATTGAATTCCC
TGTGTCCTCTGCGGGCCTCTGTGTGAGCAGTGCAGAGTGTTACTACCACTGGGGGAGGCTGCAGCTGAATCGAGTGGCAG
GGGGCTGGGAGTCCCAGTATGTGTGCTGCTCAGCTTTGGTTGGCTCTGTAGGCTGTCAGGTCGCCAAGCAACATGTGCTC
GATGGCCGGACAGAGAACCTGGAGGGTTTTGTGCGCACTTTCCAGAAGGAGTTGCCCAAAGATGCCCATGCGGGGGTCTT
TGCTCTCGACTGTGAGATGTCCTACACTACATATGGCCTGGAGGTGACCCGAGTCACAGTCGTGGACACAGACCTACAAG
TCAAGTATGATACCTTTGTCAAGCCTGACAATGAAGTTGTCGACTACAATACCAGGTTCTCGGGGGTGACAGAGGCCGAC
CTTGTGGACACAAGCATCACTCTGCGGGACGTACAGGCTGTCTTGCTGAGCATGTTCAGTGCAGACACCATCCTCATTGG
ACACAGCCTGGAGAGCGACCTACTGGCTCTCAAAGTCATCCACTGCACTGTGGTAGACACAGCTGTGCTGTTCCCACATC
ACCGGGGCCTGCCCTATAAGCGCTCCCTGCAGAACCTCATGGCTGACTACCTCAGACAAATCATCCAAGACAATGTGAAT
GGGCACAGCTCCAGTGAGGATGCCAGTGCCTGTATGCAGCTTGTCATCTGGAAGATCCGAGAAGACGCCAAGACCAAGCC
A

ORF - retro_mmus_155 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.86 %
Parental protein coverage: 89.74 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalAKRALSASSSQASHGPEPGSQPLKTRTLSGMASKTTTTVTPKRIAHSPSLQSLKKPVIPKEFGGKVPTVV
.KR.L.ASSSQ.SH.P.PGSQPLKT.TLS.MASK.TT..TPK.I.HSPSLQSLKKPVIPKEFGG.VP.VV
RetrocopySKRVLPASSSQVSHSPKPGSQPLKTPTLSRMASKITTNFTPKCIVHSPSLQSLKKPVIPKEFGGTVPIVV
ParentalRQRYLNLFIEECLKFCSSNQEAIEKALNEEKVAYDRSPSKNIYLNVAVNTLKKLRGLVPNTVPNLSKASG
.Q.YL.LFIEE.LKFCSS.QEAIEKALN.EKVAYD.S.SKNIYLNVAVN.LKKLRGL.PNT..NLSKASG
RetrocopyPQGYLHLFIEEFLKFCSSKQEAIEKALNGEKVAYDLSSSKNIYLNVAVNILKKLRGLAPNTMLNLSKASG
ParentalRRVVSHEVVLGGKLAAKTSFSLSRPSSPRVEELKALTHSAPAGTALYSRLREYLLTQEQLKENGYPFPHP
RRVVSHEVVLGGKLAAKTSFSL..PSS..VEEL.AL..SA.AG.ALY..LREYLLTQEQLKENGYPFPHP
RetrocopyRRVVSHEVVLGGKLAAKTSFSLNSPSSQQVEELRALIPSASAGYALYCHLREYLLTQEQLKENGYPFPHP
ParentalERPGGAIIFTAEEKKPKDPSCRICCRCGTEYLVSSSGRCVRSEECYYHWGRLRRNRVAGGWETQYMCCSA
ERPG.A.IFTA.EKKPKDPS.RIC.RCG.E..VSS.G.CV.S.ECYYHWGRL..NRVAGGWE.QY.CCSA
RetrocopyERPGAAVIFTAKEKKPKDPSRRICHRCGIEFPVSSAGLCVSSAECYYHWGRLQLNRVAGGWESQYVCCSA
ParentalAVGSVGCQVAKQHVQDGRKENLEGFVRTFQKELPEDAHAGVFALDCEMSYTTYGLELTRVTVVDTDMQVV
.VGSVGCQVAKQHV.DGR.ENLEGFVRTFQKELP.DAHAGVFALDCEMSYTTYGLE.TRVTVVDTD.QV.
RetrocopyLVGSVGCQVAKQHVLDGRTENLEGFVRTFQKELPKDAHAGVFALDCEMSYTTYGLEVTRVTVVDTDLQVK
ParentalYDTFVKPDNEVVDYNTRFSGVTEADLVDTSITLRDVQAVLLSMFSADTILIGHSLESDLLALKVIHGTVV
YDTFVKPDNEVVDYNTRFSGVTEADLVDTSITLRDVQAVLLSMFSADTILIGHSLESDLLALKVIH.TVV
RetrocopyYDTFVKPDNEVVDYNTRFSGVTEADLVDTSITLRDVQAVLLSMFSADTILIGHSLESDLLALKVIHCTVV
ParentalDTSVLFPHRLGLPYKRSLRNLMADYLRQIIQDNVDGHSSSEDASACMHLVIWKIREDAKTK
DT.VLFPH..GLPYKRSL.NLMADYLRQIIQDNV.GHSSSEDASACM.LVIWKIREDAKTK
RetrocopyDTAVLFPHHRGLPYKRSLQNLMADYLRQIIQDNVNGHSSSEDASACMQLVIWKIREDAKTK

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 40 .21 RPM
SRP007412_cerebellum 0 .00 RPM 54 .36 RPM
SRP007412_heart 0 .00 RPM 25 .28 RPM
SRP007412_kidney 0 .00 RPM 29 .36 RPM
SRP007412_liver 0 .00 RPM 31 .05 RPM
SRP007412_testis 0 .00 RPM 233 .09 RPM

ChIP-Seq - click to see more details

RNA Polymerase II actvity near the 5' end of retro_mmus_155 was not detected

EST - click to see more details

No EST(s) were mapped for retro_mmus_155 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_mmus_155 retrocopy 5' end.

Lab - click to see more details

retro_mmus_155 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_155 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 ENSMUSG00000047417 1 retrocopy
retro_mmus_155 ,


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