RetrogeneDB ID:

retro_cjac_3286

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:9:27047988..27049127(-)
Located in intron of:ENSCJAG00000013333
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:COASY
Ensembl ID:ENSCJAG00000005064
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cjac_3286
GCCTCAGCCGCAGGCCCCTCAATCACCGTCACTTCATCTCCCTGACTGTCCGCAGGCCTGGGCAGAATGGCCTTATTCAT
GGTCTGGCCTCCTGGTGCTGATGACGCCGCTGGCCTCCCTGGCCCCTCGCCTGGCCCCCATCCTGACCTCGGCAGCCTGG
CTGGTGAATGACACACTCTATGTACACCTGCAGCCAGGCATGAGCCTGGAAGGCCCGGCTCAGCCCCAGTCCACCCCCAT
GTGGGCCACGTTTGAGGTTCTTGATTTCATCACACACCTCTATGCTGGCCCCGACATCCACAGGCATCTGGATGTCAGAA
TCCTACTGACCAATATCCGAACCAAGAGCAGCTTTCTCCCTCCCCTGCCTACCTCAGTCCAGAATCTCGCCCACCTGCCA
GAAGTCATGTTGACAGACTTCCAGACCCTGGATGGAAGCCAGTACAACTCAGTCAAGCAGCAGGTAGTGTGTTATGCCAC
CAGCTGTTACAGCTGTTGTCTGCAACTGGCCTCAGTGCTGCTATACCCCGATTATGGGACAGGAGAAGTGCGTGTGGAGC
CCCTGGATATCCCCTTATCCTCGACGATCAGGCCAGCTTCCCCCATGTCCAGGTCTCCAAAGCAGCCAGTGTGTGGCTAC
TACCGTGGCTCTGTGGGTGACACGTTTGACCACCTGCACAATGCCCACAAGGTGTTGCTCAGTGTGTACGTCCTGGCCCA
GGAGCAGCTGGTGGTGGGAATAGCAGACCAAGATCTGTTGAAGAGCAAGTTGCTCCCTGAGCTGCTCCAACCTTATACAG
GACACATGGAACATCTGAGTGAGTTCCTGATGGATGTCAAGCCCTCCTTGACTTTCCATGTTGTCCCCCTGCTGGACCCC
TATGGGCCCACTGGCTTTGACCCCCTCCCTGGAGTTCCTGGTGGTCAGCAAGGAGACCTATCATGGGGGAATGGCCATCA
ACCGCTTCTGCCTGGAGAATGACCTGGAGGAGCTTGCCTTGTACCAGGTCCAGCTGCTGAAGGACCTAAGTCATATGGAG
AATGACGAGGACAAAGTCAGCTCCTCCAGCTTCCATCAGCAAATTCTGGGAAACCTGCTTTGGCCTTCATATGAGAGGCC
AGAGCTCCCCTAGTCTCTA

ORF - retro_cjac_3286 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.94 %
Parental protein coverage: 64.08 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalAQPRGSVCQAPSPPPAPLGLGRMAVFQ-SGLLVLTTPLASLAPRLAPILTSAARLVNDTLYVHLQPGMSL
A...G......S.P....GLGRMA.F..SGLLVL.TPLASLAPRLAPILTSAA.LVNDTLYVHLQPGMSL
RetrocopyASAAGPSITVTSSP*LSAGLGRMALFM>SGLLVLMTPLASLAPRLAPILTSAAWLVNDTLYVHLQPGMSL
ParentalEGPAQPQSTPVQATFEVLDFITHLYAGADVHRHLDVRILLTNIRTKSTFLPPMPTSVQNLAHPPEVVLTD
EGPAQPQSTP..ATFEVLDFITHLYAG.D.HRHLDVRILLTNIRTKS.FLPP.PTSVQNLAH.PEV.LTD
RetrocopyEGPAQPQSTPMWATFEVLDFITHLYAGPDIHRHLDVRILLTNIRTKSSFLPPLPTSVQNLAHLPEVMLTD
ParentalFQTLDGSQYNPVKQQLVRYATSCYSCCPRLASVLLYPDYGTGEVPVEPLDVPLPSTIRPASPVARSPKQP
FQTLDGSQYN.VKQQ.V.YATSCYSCC..LASVLLYPDYGTGEV.VEPLD.PL.STIRPASP..RSPKQP
RetrocopyFQTLDGSQYNSVKQQVVCYATSCYSCCLQLASVLLYPDYGTGEVRVEPLDIPLSSTIRPASPMSRSPKQP
ParentalVRGYYRGAVGGTFDRLHNAHKVLLSVACVLAQEQLVVGVADKDLLKSKLLPELLQPYTERVEHLSEFLVD
V.GYYRG.VG.TFD.LHNAHKVLLSV..VLAQEQLVVG.AD.DLLKSKLLPELLQPYT...EHLSEFL.D
RetrocopyVCGYYRGSVGDTFDHLHNAHKVLLSV-YVLAQEQLVVGIADQDLLKSKLLPELLQPYTGHMEHLSEFLMD
ParentalVKPSLTFDVIPLLDPYGPAGSD-PSLEFLVVSEETYRGGMAVNRFRLENDLEELALYQIQLLKDLRHTEN
VKPSLTF.V.PLLDPYGP.G.D.PSLEFLVVS.ETY.GGMA.NRF.LENDLEELALYQ.QLLKDL.H.EN
RetrocopyVKPSLTFHVVPLLDPYGPTGFD>PSLEFLVVSKETYHGGMAINRFCLENDLEELALYQVQLLKDLSHMEN
ParentalEEDKVSSSSFRQRMLGDLLRPPYERPELPPSL
.EDKVSSSSF.Q..LG.LL.P.YERPELP.SL
RetrocopyDEDKVSSSSFHQQILGNLLWPSYERPELP*SL

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
SRP051959_colon 0 .20 RPM 3 .64 RPM
SRP051959_heart 0 .23 RPM 4 .14 RPM
SRP051959_kidney 0 .27 RPM 6 .97 RPM
SRP051959_liver 0 .17 RPM 5 .70 RPM
SRP051959_lung 0 .10 RPM 4 .29 RPM
SRP051959_lymph_node 0 .07 RPM 4 .98 RPM
SRP051959_skeletal_muscle 0 .24 RPM 5 .35 RPM
SRP051959_spleen 0 .08 RPM 4 .58 RPM
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_3286 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_3286 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_3286 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
Callithrix jacchus ENSCJAG00000005064 1 retrocopy
retro_cjac_3286 ,



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