RetrogeneDB ID:

retro_mmus_1581

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:17:55700704..55701817(+)
Located in intron of:ENSMUSG00000024174
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Ccdc77
Ensembl ID:ENSMUSG00000030177
Aliases:Ccdc77, 2400002C23Rik, 2700091N06Rik, AV168274
Description:coiled-coil domain containing 77 [Source:MGI Symbol;Acc:MGI:1914450]


Retrocopy-Parental alignment summary:






>retro_mmus_1581
AATATGCAGGTCTGCCTCTTCCAGGAAAGGGAACACGTTTTACAACTCTACTCAGAAAAAGACTGACTAAGAATCAGAGA
ACTGGAAGCCAAGAAAAAGATTCAGAAGCTGTTAGCTCTTGTGGGGCCAGGAGCTGGTCAGGTGACCTATTTTCATAAGG
AGCCTCCCCACAAAGTCAGCATTCTCCTGAAGACTCTCCGGGCTGCAGATGTGTGTGAGCCTTCTGCTTCTAAAGCAGAC
CCTGGAGTAAGCAGAAGACAAGTAAGAATAAAGGACAAAGAGGACATTTCTGAGCGCAACCAGAGGGACACAGAGACACT
CCTCCTGCAGGTGGAAGCATTTCAGGTGCAGCTGGGAGAGCAGATGAAGCTTTCTAGAGAGCAAGTTGAAGGGAAGGGCT
CATGGATCAGAGTCGAGGATATCCAAGTTCAGCACCAGAGAAACCAAGAGAAAATTAAGGAGCTGACCAAGTCTCTCCAT
AATACCCAAGAACTGCTCTACGAGAACACCAAGGACTTTCTACAACTAAAATTTGAAAACCAAAATAAAGAGAAGGTATG
GATGCTTGAGAAAGATCACCTGATGTCAAAGATTATGCAGTATAGAGCACACTGTAAGAAGAAAGAAAACAAACTTGGAA
AAGTAGTTCCCATTTTACACGAGAGTCATCATGCTCAAAATGAATATACTAATTCTCCTAAGGATAAGCTAATACAAGAG
AAAAAGCTATCCAACACGTACCAAGAACAGTACATTTCTCTAGAAGAAGAACTTGTTCGAATTCGGGAGGAAGGAGGAGG
AAGGAGAGAGATCTTCAAGGATCACAAGATGGGTAAGCGCTTACAGATAATGACAAAGACCTATAATGCTGTGGAGCATT
GAACAATCCTGGAAGTAGAAGGCTTCAAGCCAGACATTAAGGTTCTCCGACAGAAGCTGAGAGACCTGGAGCAAATGCTC
TATAAGGCAACTATGAACAGCACCCATGGAAATCAGGACCTGGCCATGCTGTGTGAAGTCCGTGACAGCAACAGGAGAGC
TCCTAAGACACGGGGAGAACTGAAGAACCTCAAGTCTACAGTGTTTGGTCTGGAGAATGAGCTTAGGCTGTGC

ORF - retro_mmus_1581 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84. %
Parental protein coverage: 79.62 %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalDMQVCLFQEREHVLRLYSENDRLRIRELEDKKKIQNLLALVGPDAGEVTYFHKEPPHRVSILQKTLQAAV
.MQVCLFQEREHVL.LYSE.D.LRIRELE.KKKIQ.LLALVGP.AG.VTYFHKEPPH.VSIL.KTL.AA.
RetrocopyNMQVCLFQEREHVLQLYSEKD*LRIRELEAKKKIQKLLALVGPGAGQVTYFHKEPPHKVSILLKTLRAAD
ParentalACEPSASKADPGVSKRQVRIKDKEGISERHQRDTEMLLLQVEALQAQLGEQTKLSREQVEGLMEDRRIRV
.CEPSASKADPGVS.RQVRIKDKE.ISER.QRDTE.LLLQVEA.Q.QLGEQ.KLSREQVEG......IRV
RetrocopyVCEPSASKADPGVSRRQVRIKDKEDISERNQRDTETLLLQVEAFQVQLGEQMKLSREQVEG--KGSWIRV
ParentalEEIQVQHQRNQEKIMELTKSLHHTQELLYESTKDFLQLKFENQNKEKVWMLEKDHLMSKITQYRAQCKKK
E.IQVQHQRNQEKI.ELTKSLH.TQELLYE.TKDFLQLKFENQNKEKVWMLEKDHLMSKI.QYRA.CKKK
RetrocopyEDIQVQHQRNQEKIKELTKSLHNTQELLYENTKDFLQLKFENQNKEKVWMLEKDHLMSKIMQYRAHCKKK
ParentalEDKLGKVVPILHESHHTQNEYIKSLKDKLIQEKKLSNMYQEQCISLEEELARIREEEGVRREIFKDRSNK
E.KLGKVVPILHESHH.QNEY..S.KDKLIQEKKLSN.YQEQ.ISLEEEL.RIREE.G.RREIFKD...K
RetrocopyENKLGKVVPILHESHHAQNEYTNSPKDKLIQEKKLSNTYQEQYISLEEELVRIREEGGGRREIFKD--HK
ParentalMGKRLQIMTKRYQALEHRRALEVEGFKTDIKSLRQKLRDLEQMLYKATMNNTHGDQDLAMLCEVRDSNRR
MGKRLQIMTK.Y.A.EH...LEVEGFK.DIK.LRQKLRDLEQMLYKATMN.THG.QDLAMLCEVRDSNRR
RetrocopyMGKRLQIMTKTYNAVEH*TILEVEGFKPDIKVLRQKLRDLEQMLYKATMNSTHGNQDLAMLCEVRDSNRR
ParentalAHKIQGELKNLKSKVFGLENALRLC
A.K..GELKNLKS.VFGLEN.LRLC
RetrocopyAPKTRGELKNLKSTVFGLENELRLC

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 .05 RPM 5 .98 RPM
SRP007412_cerebellum 0 .04 RPM 9 .29 RPM
SRP007412_heart 0 .03 RPM 6 .13 RPM
SRP007412_kidney 0 .00 RPM 6 .29 RPM
SRP007412_liver 0 .00 RPM 4 .10 RPM
SRP007412_testis 0 .00 RPM 29 .68 RPM

ChIP-Seq - click to see more details

RNA Polymerase II actvity near the 5' end of retro_mmus_1581 was not detected

EST - click to see more details

No EST(s) were mapped for retro_mmus_1581 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_mmus_1581 retrocopy 5' end.

Lab - click to see more details

retro_mmus_1581 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_1581 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 ENSMUSG00000030177 2 retrocopies
retro_mmus_1581 , retro_mmus_2596,


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