RetrogeneDB ID:

retro_cjac_3182

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:9:11829358..11830678(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PES1
Ensembl ID:ENSCJAG00000010617
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cjac_3182
ATGGGAGGCCTTGAGAAGAAGAAGTATGAACGAGGCTCAGCCACCAACTACATCACCCTGAACAAAGCCCGGAAGAAGCT
CCAGCTGAGCCTGGCTGACTTTAGGCGGCTGTGCATTCTGAAGGGCATTTATCCCCATGAACCCAAACACAAGAAGAAGG
TTAACAAGGGTTTTACAGCGGCCTGAACTTTTTACCTTATCAAAGACATCAGGTTTCTCCTCCATGAACCCATCGTCAAC
AAGTTCCGGGAATACAAGGTGTTCGTCCAGAAGCTCTGGAAGGCCTATGGGAAGAGCGAGTGGAACACCGTAGAGTGTCT
AAAGGACAATAAGCCCAACTACAAACTTGACCTCATCATCAAGGAACGGTACCCCACGTTCATTGATGCCCTGCGCGACC
TGGACGACGCCCTCTCCATGTGCTTCCTCTTTTCCACCTTCCCACGGACTGGCAAGTGTCACGTGCAGACCATTCAGCTG
TGCCGCCGGCTCACCGTGGAGTTCATGCATACATCATTGCCTCCTGTGCCCTGCGCAAGGTCTTCCTGTCCATCAAAGGC
ATTTACTACCAGGCCAAGGTGCTGGGGCAGCCCATCGTGTGGATCACTCCCTATGCCTTCTCCCATGACCACCCAACAGA
TGTGGACTACAGGGTCATGGCCACCTTCACTGAGTTCTACACCACCCTGCTGGGCTTCGTCAACTTCTGCCTCTACCAGT
TGCTCAACCTCCACTACCCCCCAAAGCTCGAGGGACAGGCCCCGGCAGAGGTGAAGGCCAGTGAGGACGCCTACGGCGCT
GGACTCTGAGAGCTCTATGGAGAAACTGGTGGCCCTCAGTGCCAGCCTGGCTCGTGTGGTGGTACCTGCCATGGAAGAGG
AGGCCGAGGTGGATGAGTTTCCTGCCGATGGGGAGATGTCGGCACAAGAGGAAGACCGCAGGAAGGAGCTGGAGGCGCAG
GAGAAGCACAAGAAGCTTTTTGAGGGCCTGACGTTCTTCCTGAACTGAGAGGTGCCCCGCGAGGCCCTGGCCTTCATCAT
CAGGAGTTTTGGGGGGAAAGGGTCCTGGGACAAATCTTTGTGCATTGGGGCCACCTACGACGTCACGGACTCCCGCATCA
CTCACCAGATTGTCGACCGGCCTGGGCAGCAGACCCCTGTCATAGGCAGGTGCTACATGCAGCCCCAGTGGGTGTTTGAC
TCAGTGAACGCTAGGCTCCTCCTCCCCGTGGCAGAGTACTTCCCTGGGGTGCAGCTCCCCCCACACCTTTCACCCTTTGT
GACTGAGAAGGAAGGAGATTATGTCCCACCTGACTGGCTC

ORF - retro_cjac_3182 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 94.8 %
Parental protein coverage: 74.58 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMGGLEKKKYERGSATNYITRNKARKKLQLSLADFRRLCILKGIYPHEPKHKKKVNKGSTAARTFYLIKDI
MGGLEKKKYERGSATNYIT.NKARKKLQLSLADFRRLCILKGIYPHEPKHKKKVNKG.TAA.TFYLIKDI
RetrocopyMGGLEKKKYERGSATNYITLNKARKKLQLSLADFRRLCILKGIYPHEPKHKKKVNKGFTAA*TFYLIKDI
ParentalRFLLHEPIVNKFREYKVFVRKLRKAYGKSEWNTVERLKDNKPNYKLDHIIKERYPTFIDALRDLDDALSM
RFLLHEPIVNKFREYKVFV.KL.KAYGKSEWNTVE.LKDNKPNYKLD.IIKERYPTFIDALRDLDDALSM
RetrocopyRFLLHEPIVNKFREYKVFVQKLWKAYGKSEWNTVECLKDNKPNYKLDLIIKERYPTFIDALRDLDDALSM
ParentalCFLFSTFPRTGKCHVQTIQLCRRLTVEFMH-YIIASRALRKVFLSIKGIYYQAEVLGQPIVWITPYAFSH
CFLFSTFPRTGKCHVQTIQLCRRLTVEFMH.YIIAS.ALRKVFLSIKGIYYQA.VLGQPIVWITPYAFSH
RetrocopyCFLFSTFPRTGKCHVQTIQLCRRLTVEFMH<YIIASCALRKVFLSIKGIYYQAKVLGQPIVWITPYAFSH
ParentalDHPTDVDYRVMATFTEFYTTLLGFVNFRLYQSLNLHYPPKLEGQAQAEVKASEDTY-ALDSESSMEKLAA
DHPTDVDYRVMATFTEFYTTLLGFVNF.LYQ.LNLHYPPKLEGQA.AEVKASED.Y.ALDSESSMEKL.A
RetrocopyDHPTDVDYRVMATFTEFYTTLLGFVNFCLYQLLNLHYPPKLEGQAPAEVKASEDAY>ALDSESSMEKLVA
ParentalLSASLARVVVPAMEEEAEVDEFPADGEMSAQEEDRRKELEAQEKHKKLFEGLKFFLNREVPREALAFIIR
LSASLARVVVPAMEEEAEVDEFPADGEMSAQEEDRRKELEAQEKHKKLFEGL.FFLN.EVPREALAFIIR
RetrocopyLSASLARVVVPAMEEEAEVDEFPADGEMSAQEEDRRKELEAQEKHKKLFEGLTFFLN*EVPREALAFIIR
ParentalSFGGEVSWDKSLCIGATYDVTDSRITHQIVDRPGQQTPVIGRCYVQPQWVFDSVNARLLLPVAEYFPGVQ
SFGG..SWDKSLCIGATYDVTDSRITHQIVDRPGQQTPVIGRCY.QPQWVFDSVNARLLLPVAEYFPGVQ
RetrocopySFGGKGSWDKSLCIGATYDVTDSRITHQIVDRPGQQTPVIGRCYMQPQWVFDSVNARLLLPVAEYFPGVQ
ParentalLPPHLSPFVTEKEGDYVPPEKL
LPPHLSPFVTEKEGDYVPP..L
RetrocopyLPPHLSPFVTEKEGDYVPPDWL

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 .04 RPM 16 .02 RPM
SRP051959_heart 0 .02 RPM 14 .54 RPM
SRP051959_kidney 0 .02 RPM 23 .10 RPM
SRP051959_liver 0 .04 RPM 15 .60 RPM
SRP051959_lung 0 .02 RPM 17 .10 RPM
SRP051959_lymph_node 0 .02 RPM 17 .42 RPM
SRP051959_skeletal_muscle 0 .00 RPM 23 .15 RPM
SRP051959_spleen 0 .00 RPM 18 .66 RPM
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_3182 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_3182 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_3182 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 8 parental genes, and 10 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG00000010617 1 retrocopy
retro_cjac_3182 ,
Cavia porcellus ENSCPOG000000035651 retrocopy
Homo sapiens ENSG000001000291 retrocopy
Otolemur garnettii ENSOGAG000000058041 retrocopy
Pongo abelii ENSPPYG000000117161 retrocopy
Pan troglodytes ENSPTRG000000142512 retrocopies
Rattus norvegicus ENSRNOG000000045152 retrocopies
Tupaia belangeri ENSTBEG000000098251 retrocopy



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