RetrogeneDB ID:

retro_mmus_644

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:10:52543008..52544604(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMUSG00000049576
Aliases:Zfa-ps, Zfa, Zfx
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:Zfx
Ensembl ID:ENSMUSG00000079509
Aliases:Zfx, Zfx5, Zfx5,6, Zfx6
Description:zinc finger protein X-linked [Source:MGI Symbol;Acc:MGI:99211]


Retrocopy-Parental alignment summary:






>retro_mmus_644
GGAACTGTAGATATTGTCGAAAGTGAGCCTGAGAATGAGCTTGGAGTTGAACTACTTGATCCAAACAATAGTATTTGCGT
TCCCAGGGAAAAGATGGTTTATATGGCTGTTAACAACTCTCAGCAAGAAGAAGAACTGAATGTCACTGAGATTGCTGATG
AAATTTATATGGAAGTGATTGTTGGAGAGGAGGATGCTACAGCCTCAGAGCATGAGCAACAAGTAGAGGACAACAAAATG
AAAACCTTCATGCCGATTGCATGGGAAGCTGCTTATGGTAATAATTCTGATGGAATTGAAAACCGGAATGGCACTGCAAG
TGCCCTCTTGCACATAGATGAGTCTGCTGGCCTCGGCAGGCTGGCTAAACAAAAACCAAAGAAAAGGAGACCTGATTCCA
GGCAGTACCAAACAGCAATAATTATTGGCCCAGATGGACATCCTCTGACTGTCTACCCTTGCATGATTTGTGGCAAGAAG
TTTAAATCGAGAGGTTTCTTGAAAAGACACATGAAAAACCATCCTGAACACCTTGCCAAGAAAAAGTACCGCTGTACTGA
CTGTGATTACACTACCAACAAGAAGATAAGTTTACACAATCACCTGGAGAGCCACAAGCTAACCAGCAAGGCAGAGAAAG
CCATAGAATGCGATGAGTATGGAAAGCATTTCTCTCATGCTGGCGCTTTGTTTACCCATAAAATGGTGCATAAGGAAAAA
GGAGCCAACAAAATGCACAAGTGTAAGTTCTGTGAATATGAAACAGCTGAACAAGGCCTATTGAATCGCCATCTTTTGGC
AGTCCACAGCAAGAATTTTCCTCACATTTGTGTAGAGTGTGGCAAAGGTTTCTGCCATCCATCAGAGCTCAAAAAGCACA
TGCGAATCCATACTGGAGAAAAGCCCTATGAATGCCAGTACTGCGAATACAGGTCCACAGATTCTTCTAACTTGAAAACC
CATGTAAAAACTAAGCATAGTAAAGAGATGCCATTCAAGTGTGACATTTGTCTTCTGACTTTCTCAGATACCAAAGAGGT
GCAACAACATGCTCTTGTCCATCAAGAGAGCAAAACTCACCAGTGTTTGCATTGTGACCACAAGAGTTCAAACTCAAGTG
ATTTGAAACGACACATAATTTCAGTTCATACGAAGGACTATCCTCATAAGTGTGACATGTGTGATAAAGGCTTTCATAGG
CCTTCAGAACTCAAGAAACATGTGGCTGCCCACAAGGGTAAAAAAACGCACCAGTGTAGACATTGTGACTTTAAGATTGC
AGATCCGTTTGTACTAAGTCGCCATATTCTCTCGGTTCATACAAAGGACCTTCCATTTAGGTGTAAGAGATGTAGAACGA
GATTTCGGCAACAAAGTGAGCTTAAAAAGCATATGAAGACCCACAGTGGCCAGAAAGTGTATCAGTGTGAGTACTGTGAC
TATAGCACTACAGATGCCTCAGGCTTTAAGCGGCACGTTATCTCTATTCATACGAAAGACTATCCTCACTGCTGTGAGCA
CTGCAAGAAAGGATTCCGAAGACCCTCGGAAAAGAACCAGCACATAATGCGACATCATAAAGAAGTTGGCCTGCCC

ORF - retro_mmus_644 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 95.17 %
Parental protein coverage: 67.33 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGTVDIVESEPENEHGVELLDPNNSIRVPREKMVYMAVNDSQQEEEELNVAEIADEVYMEVIVGEEDAAAA
GTVDIVESEPENE.GVELLDPNNSI.VPREKMVYMAVN.SQQEEE.LNV.EIADE.YMEVIVGEED....
RetrocopyGTVDIVESEPENELGVELLDPNNSICVPREKMVYMAVNNSQQEEE-LNVTEIADEIYMEVIVGEED----
ParentalAAAAVHEQQVEDNEMKTFMPIAWAAAYGNNSDGIENRNGTASALLHIDESAGLGRLAKQKPKKRRRPDSR
A.A..HEQQVEDN.MKTFMPIAW.AAYGNNSDGIENRNGTASALLHIDESAGLGRLAKQKPKKRR.PDSR
RetrocopyATASEHEQQVEDNKMKTFMPIAWEAAYGNNSDGIENRNGTASALLHIDESAGLGRLAKQKPKKRR-PDSR
ParentalQYQTAIIIGPDGHPLTVYPCMICGKKFKSRGFLKRHMKNHPEHLAKKKYRCTDCDYTTNKKISLHNHLES
QYQTAIIIGPDGHPLTVYPCMICGKKFKSRGFLKRHMKNHPEHLAKKKYRCTDCDYTTNKKISLHNHLES
RetrocopyQYQTAIIIGPDGHPLTVYPCMICGKKFKSRGFLKRHMKNHPEHLAKKKYRCTDCDYTTNKKISLHNHLES
ParentalHKLTSKAEKAIECDECGKHFSHAGALFTHKMVHKEKGANKMHKCKFCEYETAEQGLLNRHLLAVHSKNFP
HKLTSKAEKAIECDE.GKHFSHAGALFTHKMVHKEKGANKMHKCKFCEYETAEQGLLNRHLLAVHSKNFP
RetrocopyHKLTSKAEKAIECDEYGKHFSHAGALFTHKMVHKEKGANKMHKCKFCEYETAEQGLLNRHLLAVHSKNFP
ParentalHICVECGKGFRHPSELKKHMRIHTGEKPYECQYCEYRSADSSNLKTHVKTKHSKEMPFKCDICLLTFSDT
HICVECGKGF.HPSELKKHMRIHTGEKPYECQYCEYRS.DSSNLKTHVKTKHSKEMPFKCDICLLTFSDT
RetrocopyHICVECGKGFCHPSELKKHMRIHTGEKPYECQYCEYRSTDSSNLKTHVKTKHSKEMPFKCDICLLTFSDT
ParentalKEVQQHALVHQESKTHQCLHCDHKSSNSSDLKRHIISVHTKDYPHKCDMCDKGFHRPSELKKHVAAHKGK
KEVQQHALVHQESKTHQCLHCDHKSSNSSDLKRHIISVHTKDYPHKCDMCDKGFHRPSELKKHVAAHKGK
RetrocopyKEVQQHALVHQESKTHQCLHCDHKSSNSSDLKRHIISVHTKDYPHKCDMCDKGFHRPSELKKHVAAHKGK
ParentalKMHQCRHCDFKIADPFVLSRHILSVHTKDLPFRCKRCRKGFRQQSELKKHMKTHSGRKVYQCEYCEYSTT
K.HQCRHCDFKIADPFVLSRHILSVHTKDLPFRCKRCR..FRQQSELKKHMKTHSG.KVYQCEYC.YSTT
RetrocopyKTHQCRHCDFKIADPFVLSRHILSVHTKDLPFRCKRCRTRFRQQSELKKHMKTHSGQKVYQCEYCDYSTT
ParentalDASGFKRHVISIHTKDYPHRCEYCKKGFRRPSEKNQHIMRHHKEVGLP
DASGFKRHVISIHTKDYPH.CE.CKKGFRRPSEKNQHIMRHHKEVGLP
RetrocopyDASGFKRHVISIHTKDYPHCCEHCKKGFRRPSEKNQHIMRHHKEVGLP

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 21 .07 RPM
SRP007412_cerebellum 0 .00 RPM 20 .28 RPM
SRP007412_heart 0 .00 RPM 16 .78 RPM
SRP007412_kidney 0 .02 RPM 26 .55 RPM
SRP007412_liver 0 .03 RPM 14 .09 RPM
SRP007412_testis 4 .35 RPM 7 .36 RPM

ChIP-Seq - click to see more details

RNA Polymerase II actvity near the 5' end of retro_mmus_644 was not detected

EST - click to see more details

No EST(s) were mapped for retro_mmus_644 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_mmus_644 retrocopy 5' end.

Lab - click to see more details

retro_mmus_644 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_644 has 0 orthologous retrocopies within eutheria group .

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

Species Parental gene accession Retrocopies number
Monodelphis domestica ENSMODG000000075121 retrocopy
retro_mdom_1640,
Mus musculus ENSMUSG00000079509 1 retrocopy
retro_mmus_644 ,




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