RetrogeneDB ID:

retro_cjac_1292

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:14:69089754..69091347(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MAK
Ensembl ID:ENSCJAG00000001070
Aliases:None
Description:male germ cell-associated kinase [Source:HGNC Symbol;Acc:6816]


Retrocopy-Parental alignment summary:






>retro_cjac_1292
ATGAACCGATACACAACCATGGGACAGCTGGGGGACAGTGCCTATGGGAGTGTGCTTATGGCCAAGAATAATGAGTCCGG
GGAACTGGTGGCCATCAAAAGGATGAAGAGAAAGTTCTATTCTTGGGATGAATGTATGAACTTGAGAGAAGTTAAGTCTC
TGAGAAAATAACATCCTAATGTTATTAAATTGAAAGAAGTTATCAGAGAAAATGACCACCTTTATTTCATATTTGACTAT
ATGAAAGAAAACCTCTATCAATTAATGCAAGACCAAAACAACTTGTTCCTTGAGTCAGTCATCAGAAATATTATGTATCA
GATATTGCAAGGGCTGGCTTTTATCCATAAACATGGGGTTTTTCATAGGGACTTGAAACCAGAAAACTTGCTTTGTATGG
GTCCAGAACTTGTGAAAATTGCTGATTTTGGACTTGCAAGAGAATTAAGGTCACAGCCACCGTACACTGATTATGTCTCT
ACTAGATGGTATTGTGCCCCTGAAGTTTTGCTGAGATCTTCTGTGTATAGCTCTCCCATTGATGTGTGGGCTGTTGGAAG
TATCATGGCTGAACTCTATATGTTAAGGCCACTTTTCCCAGGGAAAAGTGAGATTGATGAAATCTTTAAAATTTGCCAAG
TTTTAGGGACTCCCAAAAAGAGCAACTGGCCAGAAGGATACCAGCTGGCATCTTCTATGAACTTTCGTTTTCCCCAGTGT
GTTCCTATAAACTTAAAAACTCTGATTCCCAATGCCAGTAATGAAGCTATTCAGCTCATGACTGAAATGTTGAATTGGGC
TCCAATGAAACAACCAAGAGCAAGCCGGGCATTGAAACACCCATATTTTCAAGTTGGTCAGGTATTAGGCCCTTCCTCAA
ATAATCTGGAATCAAAACAGTCTTTAAATAAGCAGCTGCAACCATTAGAATCAAAGCCATCTTTAGTTGAAGTAGAGCCC
AAGCCTCTACCAGATGTAATTGATCAGACTGTTGAACAATCCCAGTCAAAAACTAGCCAGCAGCCACTGCAGCCCATTCA
GCCGCCACAGAACCTGAGCGTCCAGCAACCAGCAAAGCAACAGAATCAGCAGAAACCGCCGCAAACACGATTCTCAAACA
TCATCAGAAACATGCCAACTAAGCCAAATGGCACACTGAATCATAAAAGTGGTAGGAGGCGTTGGGGCCAGACTATCTTC
AAATCTGGAAAAAGCTGGGAAGGGTTGGAGGACTATGATTTCGGAGCCTCCCATTCCAAGAAGCCAAGCATGGGTGTTTT
TAAAGAAAAAAGGAAGAAAGATTCTCCATTTCGGCTTCCAGAGCTGGCACTCTCGGGCTCCAACCACTTGCTAGGGGAAA
ACAAGAGCCTACCTGCTGCTATTTCCGTAAAGTCTGATTCTGAATTGTCAACTGCCCCAGCCTCTAAAGAGGACTACTTG
AAACAATCAAGATATCTTCCAGGTATGAATCCCAAGAACATGTCCTTGATAGCCAGTGGAAAGGAAATAAACCCCCACAC
GTGGAGCAATCAGTTATTCCCTAAGTCACTGGGACCTGTCAGGGCAGAACTTGCTTTCAAAAGGAGCAATGCA

ORF - retro_cjac_1292 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.98 %
Parental protein coverage: 85.37 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMNRYTTMRQLGDGTYGSVLMAKNNESGELVAIKRMKRKFYSWDECMNLREVKSLKKLNHANVVKLKEVIR
MNRYTTM.QLGD..YGSVLMAKNNESGELVAIKRMKRKFYSWDECMNLREVKSL.K..H.NV.KLKEVIR
RetrocopyMNRYTTMGQLGDSAYGSVLMAKNNESGELVAIKRMKRKFYSWDECMNLREVKSLRK*-HPNVIKLKEVIR
ParentalENDHLYFIFEYMKENLYQLMKDRSKLFPESVIRNIMYQILQGLAFIHKHGFFHRDLKPENLLCMGPELVK
ENDHLYFIF.YMKENLYQLM.D...LF.ESVIRNIMYQILQGLAFIHKHG.FHRDLKPENLLCMGPELVK
RetrocopyENDHLYFIFDYMKENLYQLMQDQNNLFLESVIRNIMYQILQGLAFIHKHGVFHRDLKPENLLCMGPELVK
ParentalIADFGLARELRSQPPYTDYVSTRWYRAPEVLLRSSVYSAPIDVWAVGSIMAEL-ILRPLFPGKSEVDEIF
IADFGLARELRSQPPYTDYVSTRWY.APEVLLRSSVYS.PIDVWAVGSIMAEL..LRPLFPGKSE.DEIF
RetrocopyIADFGLARELRSQPPYTDYVSTRWYCAPEVLLRSSVYSSPIDVWAVGSIMAELYMLRPLFPGKSEIDEIF
ParentalKICQVLGTSKKSDWPEGYQLASSMNFRFPQCIPINLKTLIPNASNEAIQLMTEMLNWDPMKRPRASQALK
KICQVLGT.KKS.WPEGYQLASSMNFRFPQC.PINLKTLIPNASNEAIQLMTEMLNW.PMK.PRAS.ALK
RetrocopyKICQVLGTPKKSNWPEGYQLASSMNFRFPQCVPINLKTLIPNASNEAIQLMTEMLNWAPMKQPRASRALK
ParentalHTYFQVGQVLGPSSNHLESKQSLNTQLQPLESKPSLVEVEPKPLPDVIDQTVGQSQSKTSHQPLQPIQPP
H.YFQVGQVLGPSSN.LESKQSLN.QLQPLESKPSLVEVEPKPLPDVIDQTV.QSQSKTS.QPLQPIQPP
RetrocopyHPYFQVGQVLGPSSNNLESKQSLNKQLQPLESKPSLVEVEPKPLPDVIDQTVEQSQSKTSQQPLQPIQPP
ParentalQNLSIQQPPKQQNQQKPPQTRFPNIIKNMPTKPNGTLNHKSGRRRWGQTIFKSGESWEEVEDYDFGASHS
QNLS.QQP.KQQNQQKPPQTRF.NII.NMPTKPNGTLNHKSGRRRWGQTIFKSG.SWE..EDYDFGASHS
RetrocopyQNLSVQQPAKQQNQQKPPQTRFSNIIRNMPTKPNGTLNHKSGRRRWGQTIFKSGKSWEGLEDYDFGASHS
ParentalKKPSMGVFTEKRKKDSPSRPPELAPSGSNHLLGENKSLPAAISLKSDSELSTAPASKQYYLKQSRYLPGV
KKPSMGVF.EKRKKDSP.R.PELA.SGSNHLLGENKSLPAAIS.KSDSELSTAPASK..YLKQSRYLPG.
RetrocopyKKPSMGVFKEKRKKDSPFRLPELALSGSNHLLGENKSLPAAISVKSDSELSTAPASKEDYLKQSRYLPGM
ParentalNPKNVSLIASGKEINPHTWSNQLFPKSLGPVREELAFKRSNA
NPKN.SLIASGKEINPHTWSNQLFPKSLGPVR.ELAFKRSNA
RetrocopyNPKNMSLIASGKEINPHTWSNQLFPKSLGPVRAELAFKRSNA

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
SRP051959_colon 0 .02 RPM 6 .99 RPM
SRP051959_heart 0 .00 RPM 10 .44 RPM
SRP051959_kidney 0 .00 RPM 10 .87 RPM
SRP051959_liver 0 .02 RPM 7 .99 RPM
SRP051959_lung 0 .21 RPM 14 .79 RPM
SRP051959_lymph_node 0 .05 RPM 7 .83 RPM
SRP051959_skeletal_muscle 0 .00 RPM 4 .56 RPM
SRP051959_spleen 0 .04 RPM 10 .46 RPM

ChIP-Seq - click to see more details

Callithrix jacchus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_cjac_1292 retrocopy.

TSS - click to see more details

Callithrix jacchus was not studied using FANTOM5 data.

Lab - click to see more details

retro_cjac_1292 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_1292 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 1 parental gene, and 3 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG00000001070 3 retrocopies
retro_cjac_1292 , retro_cjac_2435, retro_cjac_3002,


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