RetrogeneDB ID:

retro_cjac_595

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:1:101171013..101171672(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CRTC1
Ensembl ID:ENSCJAG00000007421
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cjac_595
GCGCGGCTCCAGCTCCAGAAATCCCAGTACCTGCAACTGGGCCCGAGCTGCAACCAGTACTATGGCGGGTCCTTGCTCAA
TGTGAACCAGATTGGGAGTGGCACCATGCACCTGCCCTTCCAGACCCCCTTCCAATCCTCAGGCCTGGACACCAGCTGGA
CTACCTGGCACCACGGGCTGGTGGACAGGGTGTACCGAGAGTGTGGCTGGCTCGGCTCCCCGCACCGCCCGCCCCTGTCA
GTGGACAAACGCGGACGGCAGGCCGACAGCTGCCCCTACGGCACCGTGTACCTCCGGCCACCCGCGGACACCAGCTGGAG
AAGGACCAATTCTGACTCCGCACTGCACCAGAGCACAATGACGCTCACGCAGCCAGAATCCCTTACCAATGGGTCCCAGG
ACGTGAACCAGAAAAAAGTCTTACTGTTAACAGTCCCAGGAATGGAAGAGACCACATCAGAGGCAGACAAAACCTTTCCA
AGAAAGAGTGGGACACCAAGAAGACCGGGTCCAGGCCCAAGTCCTGTGACGTCGCCGGAATCAACATCTTCCCATCCGCC
GACCAGGAAAACACTACAGCCCTGATCCCAGCCACCCACAACACTGGAGGCTCCCTGCCCGACCTGACCAACATCCACTT
CCCCTCCCCGTTCCCGACC

ORF - retro_cjac_595 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.14 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalSQLQLQKSQYLQLGPSRGQYYGGSLPNVNQIGSGTMDLPFQTPFQSSGLDTSRTTRHHGLVDRVYRERGR
..LQLQKSQYLQLGPS..QYYGGSL.NVNQIGSGTM.LPFQTPFQSSGLDTS.TT.HHGLVDRVYRE.G.
RetrocopyARLQLQKSQYLQLGPSCNQYYGGSLLNVNQIGSGTMHLPFQTPFQSSGLDTSWTTWHHGLVDRVYRECGW
ParentalLGSPHRRPLSVDKHGRQADSCPYGTVYLSPPADTSWRRTNSDSALHQSTMTPTQPESFTSGSQDVHQKRV
LGSPHR.PLSVDK.GRQADSCPYGTVYL.PPADTSWRRTNSDSALHQSTMT.TQPES.T.GSQDV.QK.V
RetrocopyLGSPHRPPLSVDKRGRQADSCPYGTVYLRPPADTSWRRTNSDSALHQSTMTLTQPESLTNGSQDVNQKKV
ParentalLLLTVPGMEETTSEADK-NLSKQAWDTKKTGSRPKSCEVPGINIFPSADQENTTALIPATHNTGGSLPDL
LLLTVPGMEETTSEADK.NLSK..WDTKKTGSRPKSC.V.GINIFPSADQENTTALIPATHNTGGSLPDL
RetrocopyLLLTVPGMEETTSEADK<NLSKKEWDTKKTGSRPKSCDVAGINIFPSADQENTTALIPATHNTGGSLPDL
ParentalTNIHFPSPLPT
TNIHFPSP.PT
RetrocopyTNIHFPSPFPT

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 .02 RPM 0 .95 RPM
SRP051959_heart 0 .07 RPM 1 .16 RPM
SRP051959_kidney 0 .02 RPM 1 .13 RPM
SRP051959_liver 0 .00 RPM 0 .41 RPM
SRP051959_lung 0 .02 RPM 1 .29 RPM
SRP051959_lymph_node 0 .00 RPM 1 .44 RPM
SRP051959_skeletal_muscle 0 .04 RPM 0 .87 RPM
SRP051959_spleen 0 .00 RPM 1 .20 RPM
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_595 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_595 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_595 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 3 parental genes, and 5 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG00000007421 3 retrocopies
retro_cjac_2682, retro_cjac_595 , retro_cjac_666,
Homo sapiens ENSG000001056621 retrocopy
Pan troglodytes ENSPTRG000000107191 retrocopy



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