RetrogeneDB ID:

retro_mmus_3677

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:X:102724876..102725749(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMUSG00000080845
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:Odc1
Ensembl ID:ENSMUSG00000011179
Aliases:Odc1, ODC
Description:ornithine decarboxylase, structural 1 [Source:MGI Symbol;Acc:MGI:97402]


Retrocopy-Parental alignment summary:






>retro_mmus_3677
ATGAGCAGCTTTACTAAGGACGAGTTTGACTGCCACATCCTTGATGAAGGCTTTACTGCTAAGGACATTCTGGACCAAAA
AATCAATGAAGTCTCTTCCTCTGACGATAAGGATGCGTTCTATGTTGCGGACCTCGGAGACATTCTAAAGAAGCAGCAGA
GGTGGCTAAAAGCTCTTCCCCGCTTTACTCCCTTTTACGCAGTCAAGTGTAACGATAGCAGAGCCATAGTGAGCACCCTA
GCTGCCATTGGGACAGGATTTGACTGTGCAAGCAAGACTGAAAAACAGTTGGTACAGGGGCCTGGGGTGCCTCCAGAGAG
GATTATCTATGCAAATCCTTGTAAACAAGTCTCTCAAATCAAGTATGCTGCCAGTAACGGAGTCCAGATGATGACTTTTG
ACAGTGAAATTGAATTGATGAAAGTCGCCAGAGCACATCCAAAGGCAAAGTTGGTTCTGCGGATTGCCACTGATGATTCC
AAAGCCGTCTGTCGCCTCAGTGTTAAGTTTGGTGCCACACTCAAAACCAGCAGGCTTCTCTTGGAACGGGCAAAAGAGCT
AAATATTGACGTCATTGGTGTGAGCTTCCATGTGGGCAGTGGATGTACTGACCCCGATACCTTCGTGCAGGCAGTGTCGG
ATGCCCGCTGTGTGTTTGACATGGCAACAGAAGTTGGTTTCAGCATGCATCTGCTTGATATTGGTGGTGGCTTTCCTAGA
TCTGAAGATACAAAGCTTAAATTTGAAGAGATCACCAGTGTAATCACCCCAGCTCTGGACAAGTACTTCCCATCAGACTC
TGGAGTGAGAATCAGAGCTGAGCCAGGCAAATACTATGTCGCATCAGCTTTCACGCTTGCAGTCAACATCATT

ORF - retro_mmus_3677 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 95.88 %
Parental protein coverage: 63.12 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMSSFTKDEFDCHILDEGFTAKDILDQKINEVSSSDDKDAFYVADLGDILKKHLRWLKALPRVTPFYAVKC
MSSFTKDEFDCHILDEGFTAKDILDQKINEVSSSDDKDAFYVADLGDILKK..RWLKALPR.TPFYAVKC
RetrocopyMSSFTKDEFDCHILDEGFTAKDILDQKINEVSSSDDKDAFYVADLGDILKKQQRWLKALPRFTPFYAVKC
ParentalNDSRAIVSTLAAIGTGFDCASKTEIQLVQGLGVPAERVIYANPCKQVSQIKYAASNGVQMMTFDSEIELM
NDSRAIVSTLAAIGTGFDCASKTE.QLVQG.GVP.ER.IYANPCKQVSQIKYAASNGVQMMTFDSEIELM
RetrocopyNDSRAIVSTLAAIGTGFDCASKTEKQLVQGPGVPPERIIYANPCKQVSQIKYAASNGVQMMTFDSEIELM
ParentalKVARAHPKAKLVLRIATDDSKAVCRLSVKFGATLKTSRLLLERAKELNIDVIGVSFHVGSGCTDPETFVQ
KVARAHPKAKLVLRIATDDSKAVCRLSVKFGATLKTSRLLLERAKELNIDVIGVSFHVGSGCTDP.TFVQ
RetrocopyKVARAHPKAKLVLRIATDDSKAVCRLSVKFGATLKTSRLLLERAKELNIDVIGVSFHVGSGCTDPDTFVQ
ParentalAVSDARCVFDMATEVGFSMHLLDIGGGFPGSEDTKLKFEEITSVINPALDKYFPSDSGVRIIAEPGRYYV
AVSDARCVFDMATEVGFSMHLLDIGGGFP.SEDTKLKFEEITSVI.PALDKYFPSDSGVRI.AEPG.YYV
RetrocopyAVSDARCVFDMATEVGFSMHLLDIGGGFPRSEDTKLKFEEITSVITPALDKYFPSDSGVRIRAEPGKYYV
ParentalASAFTLAVNII
ASAFTLAVNII
RetrocopyASAFTLAVNII

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






(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 36 .54 RPM
SRP007412_cerebellum 0 .00 RPM 43 .94 RPM
SRP007412_heart 0 .00 RPM 40 .72 RPM
SRP007412_kidney 0 .12 RPM 253 .38 RPM
SRP007412_liver 0 .03 RPM 51 .94 RPM
SRP007412_testis 0 .14 RPM 221 .74 RPM
RNA Polymerase II actvity near the 5' end of retro_mmus_3677 was not detected
No EST(s) were mapped for retro_mmus_3677 retrocopy.
No TSS is located nearby retro_mmus_3677 retrocopy 5' end.
retro_mmus_3677 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_3677 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 8 parental genes, and 51 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000114151 retrocopy
Bos taurus ENSBTAG000000042561 retrocopy
Dasypus novemcinctus ENSDNOG0000001847431 retrocopies
Myotis lucifugus ENSMLUG000000104231 retrocopy
Macaca mulatta ENSMMUG000000204412 retrocopies
Monodelphis domestica ENSMODG000000147791 retrocopy
Mus musculus ENSMUSG00000011179 12 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000003862 retrocopies



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