RetrogeneDB ID:

retro_cjac_3002

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:7:88477895..88479483(-)
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_3002
ATGAACCGATACACAACCATGGGACAGTTGGGGGACGGCGCCTATAGGAGTGTGCTTATGGCCAAGAATAACGAGTCCGG
GGAGCTGGTGGCTATCAAAAGGATGAAGAGAAAGTTCTATTCTTGGGATGAATGTATGAACTTGAGATAAGTTAAGTCTC
TGAGAAAACTTAATCATCCTAATGTTATTAAATTGAAAGAAGTTATCAGAGAAAATGACCACTTTTATTTCATATTTGAA
TATATGAAAGAAAACCTCTATCAATTAATGAAAGACAGAAACAACTTGTTCCCTGAGTCAGTCATCAGAAATATTATCTA
TCAGATATTGCAAGGGCTGGCTTTTATCCATAAACATGGGTTTTTTCATAGGGACTTGAAATTAGAAAACTTGCTTTGTA
TGGGTCCAGAACTTGTGAAAATTGCTGATTTTGGACTTGCAAGAGAATTAAGGTCACAGCCACTGTACACTGATTATGTC
TCTACTAGATAGTATCATGCCCCTGAAGTTTTGCTGAGATCTTCTGTGTATAGCTCTCCCATTGATGTGTGGGCTGTTGG
AATTATCATGGCTGAACTCTATATGTTTTCCCAGGGAAAAGAGAGATGGATGAAATCTTTAAAATTTGCCAAGTTTTAGG
GACTCCGAAAAAGAGCAACTTGGCCAGAAGAATACCAGCTGGCACCTTCTATGAACTTTCGTTTTCCCCAGTGTGTTCCT
ATAAACTTAAAAACTCTGATTCCCAATGCCAGTAATGAAGCTATTCAGCTCATGACTGAAATGTTGAATTGGGATCCAAT
GAAACGACCAAGAGCAAGCCGGGCATTGAAACACCCATATTTTCAAGTTGGTCAGGTATTAGGCCATTTCTCAAATCATC
TGGAATCAAAACAGTCTTTAAATAAGCAGCTCCAACCATTAGAATCAAAGCCATCTTTAGTTGAAGTAGAGCCCAAGCCT
CTACCAGATGTAATTAGTTAGACTGTTGGACAATCCCAGTCAAAAACTAGCCAGAAGCCACTGCAGCCCATTTCGGCCGC
CACAGAACCTGAACGTCCAGCAACCACCAAAGCAACAGAATCAGCAGAAACCGCCGCAAACACAATTCCCAAACATCATC
AAAAACATGCCAACTAAGCCAAATGGTACACTGAATCATAAAAGTGGTAGGAGGTGTTGGGGCCAGACTATCTTCAAATC
TGGAGAAAGCTGGGAAGAGTTGGAGGACTATGATTTCGGAGCCTCCCATTCCAAGAAGCCAAGCATGAGTGTTTTTAAAG
AAAAAAGGAAGAAAGATTCTCCATTTCGGCTTCCAGAACTGGCACCCTCGGGCTCCAACCACTTGCTAGGGGAAAACAAG
AGCTTACCTGCTGTTATTTCCCTAAAGTCTGATTCCGAATTGTCAACTGCCCCAGCCTCTAAACAGTACTGCTTGAAACA
ATCAAGATATCTTCTAGGTGTGAATCCCAAGAACGTGTCCTTGATAGCCAGTGGAAAGGAAATAAACCTCCACACGTGGA
GCAATCAGTTATTCCCTAAGTCACTGGGATCTGTCAGGGCAGAACTTGCTTTCAAAAAGAGCAATGCA

ORF - retro_cjac_3002 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.65 %
Parental protein coverage: 85.37 %
Number of stop codons detected: 4
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMNRYTTMRQLGDGTYGSVLMAKNNESGELVAIKRMKRKFYSWDECMNLREVKSLKKLNHANVVKLKEVIR
MNRYTTM.QLGDG.Y.SVLMAKNNESGELVAIKRMKRKFYSWDECMNLR.VKSL.KLNH.NV.KLKEVIR
RetrocopyMNRYTTMGQLGDGAYRSVLMAKNNESGELVAIKRMKRKFYSWDECMNLR*VKSLRKLNHPNVIKLKEVIR
ParentalENDHLYFIFEYMKENLYQLMKDRSKLFPESVIRNIMYQILQGLAFIHKHGFFHRDLKPENLLCMGPELVK
ENDH.YFIFEYMKENLYQLMKDR..LFPESVIRNI.YQILQGLAFIHKHGFFHRDLK.ENLLCMGPELVK
RetrocopyENDHFYFIFEYMKENLYQLMKDRNNLFPESVIRNIIYQILQGLAFIHKHGFFHRDLKLENLLCMGPELVK
ParentalIADFGLARELRSQPPYTDYVSTRWYRAPEVLLRSSVYSAPIDVWAVGSIMAELILRPLFPGKSEVDEIFK
IADFGLARELRSQP.YTDYVSTR.Y.APEVLLRSSVYS.PIDVWAVG.IMAEL.......GK.......K
RetrocopyIADFGLARELRSQPLYTDYVSTR*YHAPEVLLRSSVYSSPIDVWAVGIIMAELYM--FSQGKERWMKSLK
ParentalICQVLGTSKKSDWPEGYQLASSMNFRFPQCIPINLKTLIPNASNEAIQLMTEMLNWDPMKRPRASQALKH
.....G..K...WPE.YQLA.SMNFRFPQC.PINLKTLIPNASNEAIQLMTEMLNWDPMKRPRAS.ALKH
RetrocopyFAKF*GLRKRATWPEEYQLAPSMNFRFPQCVPINLKTLIPNASNEAIQLMTEMLNWDPMKRPRASRALKH
ParentalTYFQVGQVLGPSSNHLESKQSLNTQLQPLESKPSLVEVEPKPLPDVIDQTVGQSQSKTSHQPLQPI-QPP
.YFQVGQVLG..SNHLESKQSLN.QLQPLESKPSLVEVEPKPLPDVI..TVGQSQSKTS..PLQPI..PP
RetrocopyPYFQVGQVLGHFSNHLESKQSLNKQLQPLESKPSLVEVEPKPLPDVIS*TVGQSQSKTSQKPLQPI>RPP
ParentalQNLSIQQPPKQQNQQKPPQTRFPNIIKNMPTKPNGTLNHKSGRRRWGQTIFKSGESWEEVEDYDFGASHS
QNL..QQPPKQQNQQKPPQT.FPNIIKNMPTKPNGTLNHKSGRR.WGQTIFKSGESWEE.EDYDFGASHS
RetrocopyQNLNVQQPPKQQNQQKPPQTQFPNIIKNMPTKPNGTLNHKSGRRCWGQTIFKSGESWEELEDYDFGASHS
ParentalKKPSMGVFTEKRKKDSPSRPPELAPSGSNHLLGENKSLPAAISLKSDSELSTAPASKQYYLKQSRYLPGV
KKPSM.VF.EKRKKDSP.R.PELAPSGSNHLLGENKSLPA.ISLKSDSELSTAPASKQY.LKQSRYL.GV
RetrocopyKKPSMSVFKEKRKKDSPFRLPELAPSGSNHLLGENKSLPAVISLKSDSELSTAPASKQYCLKQSRYLLGV
ParentalNPKNVSLIASGKEINPHTWSNQLFPKSLGPVREELAFKRSNA
NPKNVSLIASGKEIN.HTWSNQLFPKSLG.VR.ELAFK.SNA
RetrocopyNPKNVSLIASGKEINLHTWSNQLFPKSLGSVRAELAFKKSNA

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 1 .26 RPM 6 .99 RPM
SRP051959_heart 0 .21 RPM 10 .44 RPM
SRP051959_kidney 1 .29 RPM 10 .87 RPM
SRP051959_liver 0 .15 RPM 7 .99 RPM
SRP051959_lung 0 .86 RPM 14 .79 RPM
SRP051959_lymph_node 1 .35 RPM 7 .83 RPM
SRP051959_skeletal_muscle 0 .07 RPM 4 .56 RPM
SRP051959_spleen 0 .69 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_3002 retrocopy.

TSS - click to see more details

Callithrix jacchus was not studied using FANTOM5 data.

Lab - click to see more details

retro_cjac_3002 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_3002 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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