RetrogeneDB ID:

retro_cjac_1438

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:15:96560248..96561457(-)
Located in intron of:ENSCJAG00000000594
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:QTRT1
Ensembl ID:ENSCJAG00000006506
Aliases:None
Description:Queuine tRNA-ribosyltransferase [Source:UniProtKB/TrEMBL;Acc:F7GYQ9]


Retrocopy-Parental alignment summary:






>retro_cjac_1438
ATGGCGGGAGCGGCCACCCAGGTTTCTCTGGAGTCGGCCCCAAGGATCATGAGGCTGGTAGCCGAATGCAGCCGCTCCAG
GGCCCGCGCAGGAGAGCTGCGGCTGCCGCATGGAACAGTGGCCACTCCTGTGTTCATGCCAGTGGGCACGCAGGCCACCA
TGAAGGGCATCACGACCGAGCAGCTGGACGCTCTGGGTTGCCGAATCTGTCTGGGCAATACCTACCATCTGGGTCTAAGG
CCGGGACCCGAGCTGATCCAAAAAGCCAGCGGTCTCCACGGCTTCATGAATTGGCCTCATAATCTGCTAACGGACAACGG
CGGTTTCCAGATGGTGTCGCTGGTGTCTCTGTCCGAGGTGACTGAGGAAGGCGTCTGCTTCCGCTCCCCCTACGACGGCA
ATGAGACCCTGCTGAGCCCGGAGAAATCCGTGCAGATCCAGAACGCACTGGGCTCAGATATCATCATGCAGTTGGATGAT
GTGGTCAGCAGCACCGTGACCGGGCCACGCGTGGAGGAGGCCATGTACAGGTCAATCCGCTGGCTAGACCGGTGCATTGC
AGCCCATCAGCGGCCGGACAAGCAGAACCTCTTCGCCATTATCCAGGGGGGGCTGGACGCAGATCTCCGGGCCACCTGCC
TTGAAGAAATGACCAAGCGGGACGTGCCTGGCTTTGCCATCGGGGGCCTGAGCCGGGGCGAGAGCAAGGCACAGTTCTGG
CGGATGGTGGCGTTGAGCACCTCTCGGCTGCCTAAGGACAAGCCCCAATATCTGATGGGGGTTGGCTGTGCCACCGATCT
GGTGGTCTGCGTGGCTCTTGGATGTGACATGTTCGACTGTGTCTTCCCCACACGGACAGCGCGCTTTGGCTCTGCCCTGG
TGCCCACCGGAAACCTGCAGTTGAGGAAGAAGGTGTTTGAGAAGGACTTCAGCCCCATAGACCCAGAGTGCACCTGCCCC
ACGTGCCAGAATCACAGCCGCGCCTTCCTGCACACACTCCTGCACAGCGACAACACCGCCGCGCTGCACCACCTCACGGT
GCACAACATCGCTTACCAGCTGCAGCTCATGAGTGCCATCCGCACCAGCATCGTGGAGAAGAGCTTCCCGGACTTCGTGC
GGGACTTCATGGGCACCATGTACGGGGACCCCACCCTCTGTCCCACCTGGGCCACTGACGCTCTGGCCTCCGTGGGAATC
ACACTGGGC

ORF - retro_cjac_1438 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 98.26 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAGAATQVSLESAPRIMRLVAECSRSRARAGELRLPHGTVATPVFMPVGTQATMKGITTEQLDALGCRIC
MAGAATQVSLESAPRIMRLVAECSRSRARAGELRLPHGTVATPVFMPVGTQATMKGITTEQLDALGCRIC
RetrocopyMAGAATQVSLESAPRIMRLVAECSRSRARAGELRLPHGTVATPVFMPVGTQATMKGITTEQLDALGCRIC
ParentalLGNTYHLGLRPGPELIQKANGLHGFMNWPHNLLTDSGGFQMVSLVSLSEVTEEGVRFRSPYDGNETLLSP
LGNTYHLGLRPGPELIQKA.GLHGFMNWPHNLLTD.GGFQMVSLVSLSEVTEEGV.FRSPYDGNETLLSP
RetrocopyLGNTYHLGLRPGPELIQKASGLHGFMNWPHNLLTDNGGFQMVSLVSLSEVTEEGVCFRSPYDGNETLLSP
ParentalEKSVQIQNALGSDIIMQLDDVVSSTVTGPRVEEAMYRSIRWLDRCIAAHQRPDKQNLFAIIQGGLDADLR
EKSVQIQNALGSDIIMQLDDVVSSTVTGPRVEEAMYRSIRWLDRCIAAHQRPDKQNLFAIIQGGLDADLR
RetrocopyEKSVQIQNALGSDIIMQLDDVVSSTVTGPRVEEAMYRSIRWLDRCIAAHQRPDKQNLFAIIQGGLDADLR
ParentalATCLEEMTKRDVPGFAIGGLSGGESKAQFWRMVALSTSRLPKDKPRYLMGVGYATDLVVCVALGCDMFDC
ATCLEEMTKRDVPGFAIGGLS.GESKAQFWRMVALSTSRLPKDKP.YLMGVG.ATDLVVCVALGCDMFDC
RetrocopyATCLEEMTKRDVPGFAIGGLSRGESKAQFWRMVALSTSRLPKDKPQYLMGVGCATDLVVCVALGCDMFDC
ParentalVFPTRTARFGSALVPTGNLQLRKKVFEKDFSPIDPECTCPTCQNHSRAFLHTLLHSDNTAALHHLTVHNI
VFPTRTARFGSALVPTGNLQLRKKVFEKDFSPIDPECTCPTCQNHSRAFLHTLLHSDNTAALHHLTVHNI
RetrocopyVFPTRTARFGSALVPTGNLQLRKKVFEKDFSPIDPECTCPTCQNHSRAFLHTLLHSDNTAALHHLTVHNI
ParentalAYQLQLMSAIRTSIVEKRFPDFVRDFMGTMYGDPTLCPTWATDALASVGITLG
AYQLQLMSAIRTSIVEK.FPDFVRDFMGTMYGDPTLCPTWATDALASVGITLG
RetrocopyAYQLQLMSAIRTSIVEKSFPDFVRDFMGTMYGDPTLCPTWATDALASVGITLG

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 .38 RPM 2 .11 RPM
SRP051959_heart 0 .28 RPM 2 .74 RPM
SRP051959_kidney 0 .64 RPM 5 .17 RPM
SRP051959_liver 0 .63 RPM 4 .61 RPM
SRP051959_lung 0 .46 RPM 3 .48 RPM
SRP051959_lymph_node 0 .62 RPM 3 .20 RPM
SRP051959_skeletal_muscle 0 .37 RPM 5 .42 RPM
SRP051959_spleen 0 .55 RPM 3 .40 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_1438 retrocopy.

TSS - click to see more details

Callithrix jacchus was not studied using FANTOM5 data.

Lab - click to see more details

retro_cjac_1438 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_1438 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 ENSCJAG00000006506 1 retrocopy
retro_cjac_1438 ,


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