RetrogeneDB ID:

retro_mmus_74

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:10:99444483..99445818(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMUSG00000090665
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:Gad1
Ensembl ID:ENSMUSG00000070880
Aliases:Gad1, EP10, GAD25, GAD44, GAD67, Gad-1
Description:glutamate decarboxylase 1 [Source:MGI Symbol;Acc:MGI:95632]


Retrocopy-Parental alignment summary:






>retro_mmus_74
ATGGAAGGCTTTAATTTGGAGCTGTCTGATCACCCCGAGTCTCTGGAGCAGATCCTGGTTGACTGTAGAGACACCCTGAA
GTATGGGGTTCGTACAGGTCACCCTCGATTTTTCAACCAGCTCTCTACTGGTTTGGATATCATTGGTTTAGCTGGTGAAT
GGCTGACATCAACTGCTAATACCAATATGTTTACATATGAAATTGCACCCGTGTTTGTTCTCATGGAACAGATCACACTT
AAGAAGATGAGAGAGATCATTGGATGGTCAAATAAAGATGGTGATGGGATATTTTCTCCCGGGGGAGCCATATCCAATAT
GTACAGCATCATGGCAGCTCGTTACAAGTACTTTCCGGAAGTCAAGACAAAAGGCATGGCGGGTGTGCCCAAACTGGTCC
TCTTCACCTCAGAACACAGTCACTACTCCATAAAGAAAGCCGGGGCTGCTCTTGGCTTTGGAACAGACAATGTGATTTTG
ATAGAGTGCAATGAAAGGGGGAAGATAATTCCGGCTGATTTAGAGGCAAAAATTCTTGATGCCAAACAAAAGGGATACGT
TCCCTTTTATGTCAATGCAACCGCAGGCACGACTGTTTACGGAGCTTTTGATCCAATACAGGAGATTGCGGACGTATGTG
AGAAATACAACCTTTGGCTGCACGTGGATGCTGCCTGGGGTGGTGGGCTGCTCATGTCCCAGAAGCACCGCCACAAACTC
AGTGGCATAGAAAGGGCCGATTCAGTCACCTGGAACCCTCACAAGATAATGGGCGTACCGCTCCAGTGCTCTGCCATTCT
GGTCAAGGAAAAGGGTATGCTCCAAGGATGCAGCCAGATGTGTGCAGGCTACCTCTTCCAGCCAGATAAGCAGTATGACG
TCTCCTACGATACCGGGGACAAGGCGATTCAGTGTGGCCGCCACGTGGACATCTTCAAGTTCTGGCTGATGTGGAAAGCA
AAGGGCACTGTGGGATTTGAAAATCAGATTAACGAGTGCCTGGAGTTGGCTGAATACCTCTACGCCAAGATTAAAAACAG
AGAGGAGTTTGAGATGGTTTTCGATGGTGAGCCTGAGCACACAAATGTCTGTTTCTGGTACATTCCACAAAGCCTTCGAG
GGGTTCCAGATAGCCCTGAGCGACGAGAAAAACTACACAGGGTGGCTCCCAAGATCAAAGCCCTGATGATGGACTCAGGA
ACAACCATGGTGGGCTACCAGCCTCAAGGGGACAAGGTGAACTTCTTCCGGATGGTCATCTCCAACCCAGCCGCCACCCA
GTCTGACATGGATTTCCTCATTGAGGAAATAGTGAGGTTGGGTCAGGATCTGTAA

ORF - retro_mmus_74 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 96.17 %
Parental protein coverage: 74.87 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMEGFNLELSDHPESLEQILVDCRDTLKYGVRTGHPRFFNQLSTGLDIIGLAGEWLTSTANTNMFTYEIAP
MEGFNLELSDHPESLEQILVDCRDTLKYGVRTGHPRFFNQLSTGLDIIGLAGEWLTSTANTNMFTYEIAP
RetrocopyMEGFNLELSDHPESLEQILVDCRDTLKYGVRTGHPRFFNQLSTGLDIIGLAGEWLTSTANTNMFTYEIAP
ParentalVFVLMEQITLKKMREIVGWSNKDGDGIFSPGGAISNMYSIMAARYKYFPEVKTKGMAAVPKLVLFTSEHS
VFVLMEQITLKKMREI.GWSNKDGDGIFSPGGAISNMYSIMAARYKYFPEVKTKGMA.VPKLVLFTSEHS
RetrocopyVFVLMEQITLKKMREIIGWSNKDGDGIFSPGGAISNMYSIMAARYKYFPEVKTKGMAGVPKLVLFTSEHS
ParentalHYSIKKAGAALGFGTDNVILIKCNERGKIIPADLEAKILDAKQKGYVPLYVNATAGTTVYGAFDPIQEIA
HYSIKKAGAALGFGTDNVILI.CNERGKIIPADLEAKILDAKQKGYVP.YVNATAGTTVYGAFDPIQEIA
RetrocopyHYSIKKAGAALGFGTDNVILIECNERGKIIPADLEAKILDAKQKGYVPFYVNATAGTTVYGAFDPIQEIA
ParentalDICEKYNLWLHVDAAWGGGLLMSRKHRHKLSGIERANSVTWNPHKMMGVLLQCSAILVKEKGILQGCNQM
D.CEKYNLWLHVDAAWGGGLLMS.KHRHKLSGIERA.SVTWNPHK.MGV.LQCSAILVKEKG.LQGC.QM
RetrocopyDVCEKYNLWLHVDAAWGGGLLMSQKHRHKLSGIERADSVTWNPHKIMGVPLQCSAILVKEKGMLQGCSQM
ParentalCAGYLFQPDKQYDVSYDTGDKAIQCGRHVDIFKFWLMWKAKGTVGFENQINKCLELADYLYAKIKNREEF
CAGYLFQPDKQYDVSYDTGDKAIQCGRHVDIFKFWLMWKAKGTVGFENQIN.CLELA.YLYAKIKNREEF
RetrocopyCAGYLFQPDKQYDVSYDTGDKAIQCGRHVDIFKFWLMWKAKGTVGFENQINECLELAEYLYAKIKNREEF
ParentalEMVFDGEPEHTNVCFWYIPQSLRGVPDSPERREKLHRVAPKIKALMMESGTTMVGYQPQGDKANFFRMVI
EMVFDGEPEHTNVCFWYIPQSLRGVPDSPERREKLHRVAPKIKALMM.SGTTMVGYQPQGDK.NFFRMVI
RetrocopyEMVFDGEPEHTNVCFWYIPQSLRGVPDSPERREKLHRVAPKIKALMMDSGTTMVGYQPQGDKVNFFRMVI
ParentalSNPAATQSDIDFLIEEIERLGQDL
SNPAATQSD.DFLIEEI.RLGQDL
RetrocopySNPAATQSDMDFLIEEIVRLGQDL

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 .14 RPM 401 .54 RPM
SRP007412_cerebellum 0 .17 RPM 396 .52 RPM
SRP007412_heart 0 .06 RPM 0 .06 RPM
SRP007412_kidney 0 .02 RPM 0 .40 RPM
SRP007412_liver 0 .03 RPM 0 .00 RPM
SRP007412_testis 0 .00 RPM 0 .78 RPM

ChIP-Seq - click to see more details

RNA Polymerase II actvity near the 5' end of retro_mmus_74 was not detected

EST - click to see more details

No EST(s) were mapped for retro_mmus_74 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_mmus_74 retrocopy 5' end.

Lab - click to see more details

retro_mmus_74 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_74 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 ENSMUSG00000070880 1 retrocopy
retro_mmus_74 ,


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