RetrogeneDB ID:

retro_cjac_3267

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:9:15146406..15148431(-)
Located in intron of:ENSCJAG00000018891
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ANO6
Ensembl ID:ENSCJAG00000013160
Aliases:None
Description:anoctamin 6 [Source:HGNC Symbol;Acc:25240]


Retrocopy-Parental alignment summary:






>retro_cjac_3267
CTCAACTGGTTTACCAAAGTCCTCAGTGTAGGTGAAAGCATCATCAAGCCAGAGTGAGAGTTTTTCACTGCTCCATTTGA
GAAGAACCGGATGAAGGATTTTTACATTGTGGTGAGAGATGCTTTCTTCAGTCCAGCCACCAGAAGCCGCATTGTGTCCT
TCATCCTCTCCCGGGTCAAGTATCAAATGATAAACAATGTTAGCAAGTTTGGGATCAACAGATTCGTAAACTCTGGGATC
TACAAGGCAGCTTTCCCACTTCATGACTGCAAATTCCGCCGTCACTCAGTGGATCCCAGCTGTCCTAATGAACGGTACCT
TCTGTACAGAGAACGGTCTCATCCTCGAAGCATATACAAAAAGCAGCCCTTGGATCTTACCAGGAAATCTTATGGAGAGA
AGATCGGAATCTACTTTGCTTGGCTGGGCTATTACACTCAGATGCTTCTCCTGGCAGCAGTCGTAGGAGTGGCTTGCTTT
CTCTGCGGATATCTTAATCAAGATAACTATACATGGAGCAAAGAAGTTTGTCCTCCTGATATTGGTGGCAAGATCATGAC
GTGTCCTCAGTGTGATAAGCATTGTCCATTCTGGAAACTCAATATGACTTGCGAGTCTTCAAAGAAATTGTGCCTCTTTG
ACAGTTTGGGAACCCTCATCTTTGCAGTATTTATGGGACTATGGGTTACCTTGTTTTTGAAGTTTTGGAAGTGACGCCAA
GCAGAACTTGAGTATGAATGGGACACTGTTGAGTTACAGCAGGAAGAACAAGCCTGGCCAGAATATGAAGCATGATGTAC
TCACGTAGCGATAAGTGAGATTACTCAGGAAGAAGAACGCTTTCCCTTTACTGCCTGGGGAAAATGTCTACGGATAACCC
TCTGTGCAAGTGCTGTTCTTTTCTGGATCCTACTGATCATCGCTTCAGTTATTGGGATCATTGTCTGGGGGCTCTCAGTG
TTTATTGTCTTTTCTACACAACTTAAGAAGCTTAATGGGACAGACCCAATCCAGAAGTACCTGACTCCACAGCCAGCCAC
GTCCATCACGGCCTCCATCATCAGCTTTATCATGATTCTGAACACCGTATAGGAAAGAGTGGCAATTATGATTACTAACT
GTGAACTCCCAAGGACCCAGACTGATTACGAGAACAGCCTCACCATGAAGATGTTCTTATTCCAGTTTGTCAGCTACTAC
TCTTCATGCTTCTGCATAGCATTCTTTAAGGGCAAATTTGTAGGCTAGCCAGAGGACCCAGTTTATTGGTTGGGAAAATA
CAGAAATGAAGAGTGTGACCCAGGTGGCCGTCTTCTTGAACTGACAACTCAGCTGACAACAATCATGGGAGGAAAAGCAA
TCTGGAGTGACACACAAGAAGTATTATTGCCCTGGATGATGAATCTAATTGGACGATTTCACAGAGTTTCTGGATCAGAA
AAGATAACCCCACGATGGGAACAGGAATACCATCTCCAACCTATGAGAAAACTGGGATTATTTTATGAATATCTTGAAAT
GATTATTCAGTTTGGGTTTGTCACCTTATTTGTGGCCTCTTTTCCACTGGCCCCTCTGTTGGCTCTCGTGAACAATATAT
TGGAAATAAGAGTGGACGCATGGAAACTGACCACCCAGTTTAGACGCCTGGTACCAGAGAAAGCCTAAGACATTGGAGCA
TGGCAGCCCATCATGCAAGGAATAGCAATTCTGGCTGTGGTGACCAATGTCATGATCATTGCTTTCACATCAGACATGAT
CCCCCGCCTGGTGTACTACTGGTCCTTCTCTGTCCCTCCCTACGGAAACCACACTTCCTACACCATGGATGGGTAAATCA
GCAACACTCTCTCTATCTTCAAAGTTGCAGACTTCAAAAACAAAAGCAAGGGAAGCCCATACTCTGAGCAGGGTAACCAT
ACCACATGCAGGTATCATGATTTCCGATACCCACCTGGACACCCCCAGGAGTATAAACACAACATCTACTATTGGCACGT
GATTGCAGCCAAGCTGGCTTTCATC

ORF - retro_cjac_3267 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.14 %
Parental protein coverage: 75.98 %
Number of stop codons detected: 7
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLNWFTKVLSVDESIIKPEQEFFTAPFEKNRMNDFYIVDRDAFFNPATRSRIVYFILSRVKYQVINSVSKF
LNWFTKVLSV.ESIIKPE.EFFTAPFEKNRM.DFYIV.RDAFF.PATRSRIV.FILSRVKYQ.IN.VSKF
RetrocopyLNWFTKVLSVGESIIKPE*EFFTAPFEKNRMKDFYIVVRDAFFSPATRSRIVSFILSRVKYQMINNVSKF
ParentalGINRLVNSGIYKAAFPLHDCKFRRQSEDPSCPNERYLLYREWAHPRSIYKKQPLDLIRKYYGEKIGIYFA
GINR.VNSGIYKAAFPLHDCKFRR.S.DPSCPNERYLLYRE..HPRSIYKKQPLDL.RK.YGEKIGIYFA
RetrocopyGINRFVNSGIYKAAFPLHDCKFRRHSVDPSCPNERYLLYRERSHPRSIYKKQPLDLTRKSYGEKIGIYFA
ParentalWLGYYTQMLLLAAVVGVACFLYGYLNQDNCTWSKEVCHPDIGGKIIMCPQCDKHCPFWKLNITCESSKKL
WLGYYTQMLLLAAVVGVACFL.GYLNQDN.TWSKEVC.PDIGGKI..CPQCDKHCPFWKLN.TCESSKKL
RetrocopyWLGYYTQMLLLAAVVGVACFLCGYLNQDNYTWSKEVCPPDIGGKIMTCPQCDKHCPFWKLNMTCESSKKL
ParentalCIFDSFGTLIFAVFMGVWVTLFLEFWKRRQAELEYEWDTVELQQEEQARPEYEARCTHIVINEITQEEER
C.FDS.GTLIFAVFMG.WVTLFL.FWK.RQAELEYEWDTVELQQEEQA.PEYEA.CTH..I.EITQEEER
RetrocopyCLFDSLGTLIFAVFMGLWVTLFLKFWK*RQAELEYEWDTVELQQEEQAWPEYEA*CTHVAISEITQEEER
ParentalIPFTAWGKCLRITLCASAVFFWILLIIASVIGIIVYRLSVFIVFSTQLKNLNGTDPIQKYLTPQTATSIT
.PFTAWGKCLRITLCASAV.FWILLIIASVIGIIV..LSVFIVFSTQLK.LNGTDPIQKYLTPQ.ATSIT
RetrocopyFPFTAWGKCLRITLCASAVLFWILLIIASVIGIIVWGLSVFIVFSTQLKKLNGTDPIQKYLTPQPATSIT
ParentalASIISFIIIMILNTIYERVAIMITNFELPRTQTDYENSLTMKMFLFQFVNYYSSCFYIAFFKGKFVGYPG
ASIISF..IMILNT..ERVAIMITN.ELPRTQTDYENSLTMKMFLFQFV.YYSSCF.IAFFKGKFVG.P.
RetrocopyASIISF--IMILNTV*ERVAIMITNCELPRTQTDYENSLTMKMFLFQFVSYYSSCFCIAFFKGKFVG*PE
ParentalDPVYWLGKYRNEECDPGGCLLELTTQLTIIMGGKAIWNNIQEVLLPWIMNLIGRFHRVSGSEKITPRWEQ
DPVYWLGKYRNEECDPGG.LLELTTQLT.IMGGKAIW...QEVLLPW.MNLIGRFHRVSGSEKITPRWEQ
RetrocopyDPVYWLGKYRNEECDPGGRLLELTTQLTTIMGGKAIWSDTQEVLLPWMMNLIGRFHRVSGSEKITPRWEQ
ParentalDYHLQPMGKLGLFYEYLEMIIQFGFVTLFVASFPLAPLLALVNNILEIRVDAWKLTTQFRRLVPEKAQDI
.YHLQPM.KLGLFYEYLEMIIQFGFVTLFVASFPLAPLLALVNNILEIRVDAWKLTTQFRRLVPEKA.DI
RetrocopyEYHLQPMRKLGLFYEYLEMIIQFGFVTLFVASFPLAPLLALVNNILEIRVDAWKLTTQFRRLVPEKA*DI
ParentalGAWQPIMQGIAILAVVTNAMIIAFTSDMIPRLVYYWSFSVPPYGNHTSYTMDGYINNTLSIFKVADFKNK
GAWQPIMQGIAILAVVTN.MIIAFTSDMIPRLVYYWSFSVPPYGNHTSYTMDG.I.NTLSIFKVADFKNK
RetrocopyGAWQPIMQGIAILAVVTNVMIIAFTSDMIPRLVYYWSFSVPPYGNHTSYTMDG*ISNTLSIFKVADFKNK
ParentalSKGNPYSEQGNHTTCRYRDFRYPPGHPQEYKHNIYYWHVIAAKLAFI
SKG.PYSEQGNHTTCRY.DFRYPPGHPQEYKHNIYYWHVIAAKLAFI
RetrocopySKGSPYSEQGNHTTCRYHDFRYPPGHPQEYKHNIYYWHVIAAKLAFI

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 .00 RPM 42 .27 RPM
SRP051959_heart 0 .07 RPM 81 .76 RPM
SRP051959_kidney 0 .02 RPM 54 .60 RPM
SRP051959_liver 0 .04 RPM 47 .78 RPM
SRP051959_lung 0 .02 RPM 92 .42 RPM
SRP051959_lymph_node 0 .05 RPM 58 .15 RPM
SRP051959_skeletal_muscle 0 .07 RPM 62 .13 RPM
SRP051959_spleen 0 .02 RPM 97 .98 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_3267 retrocopy.

TSS - click to see more details

Callithrix jacchus was not studied using FANTOM5 data.

Lab - click to see more details

retro_cjac_3267 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_3267 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 ENSCJAG00000013160 1 retrocopy
retro_cjac_3267 ,


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