RetrogeneDB ID:

retro_cjac_1592

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:17:34406802..34408378(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:BMPR1B
Ensembl ID:ENSCJAG00000006930
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cjac_1592
ATTTACATCAGATTATCAGGAGCCTATCTGTTTATCATTTCTCCTGTTCGAGGACAGTATCTAGATGGTATGCTTCATGG
CACTGGGATGAAACCAGACTCCAACTGGAAAAAATCAGAAAATGGAGTAACCTTAGCACCAAAGGATACCTTGCCTTTTT
AAAAGTGCGATTGCTCAGGGCACTGCCCGAATGATGCTATTAATAACACATGTGTAACTAATGGACATTGCTTTGCCATC
ATAGAACAAGATGACCAGGGAGAAACCACTTTAGCTTTAGGGTGTATGAAATATGAAGGATTTGATTTTCAGTGCAAAGA
TTCTCCAAAAGCCCAGTACATCAGATAATAGAACATTGTCTGATCAATTTATGTAACCAGTATTTGCAACCCACACTGCC
CCCTGTTGTCATTGGCCCATTTTCTGATGGCAGCATTCGAAGGCTGGTTTTGCTCATTCCAATGGCTGTCTGCATAATTG
CTATGATCATCTTCACCAGCTGCTTTTGTTACAAACATTATTGCGAGAGCATCTCAAACATTGTTACAATCGTGATTTTG
AACAGGATGAAGCATTTGTTCCAATTGGAGAATCACCAAAAAACCTTAGTGACCAGTTACAAAGTTCTGGTAGTGAGTCT
GGACTACCTTTATTGTTTCAGTGAACTATTGCCAGACAGACTCAGATGGTCCGACAAGTTGGTAAAGGCGGATATGGAGA
AGTATGGATGGGTAAATGGCGGGGTGAAAAGGTGGCGATCAAAGTATTTTTTTTAACCACTGAAGAAGCCAGCTGGTTTC
AAGAAACAGAAATCTACCAAACTGTGCTAATGCCCCATGAAAAGATACTTGGTTTCAGAGTGGCAGACACTGAAAGTACG
GGTTCCTGGATTCAGCTCTATTTGATTACTGATTGCCATGAAAATGGATCTCTCCATGACTTCCTCAAATGTGCTACACT
GGACACCAGAGCCCTGCTCTAACTGGCTTATTCAGCTGCTTGTGGTCTGTGCCACCTGCACACAGAAGTGTATGGTACCC
AGGATAGCCCACAATTGCTCACTGAGACCTAAAGAGCAAAAACATCCTCATCAAGACAAATGGGAGTTGCTGTATTGCTG
ACCTGGGCCTTGCTGTTAAATTAAACAGTGACACAAATGAAGTTAATGTGCCCTTGATACCAAGGTGGGCACCAAATGCT
ACATGGCTCCAGAAGTTCTGAACAAAAGCCTGAACAAAAACCACTTCCAGCCCTACATCATGGCTGACATCTACAGCTTT
GGCCTGATCATTTGAGAGATGCTTTCCATTGGATCACAGGAGGGCTTGTGGAAGAGTAACAATTGCCATATTACAACATG
GTACCGAGTGATCTGTCATGCGAAGATATGCATGCGGTTGTGTATGTCAAACGCTTGTGGCCAAATGTGTCTAATTGGCG
GGATGGTGGTGAATGTCTATGAGCAGTTTTGAAGCTGATGTCAGAATGCTGGGCCCACAATCCAGCCTCCAGACTCATAG
CATTGACAATCAAGAAGACACTTGCCAAGATGGTTCAGTCCCAAGATGTAAAAATC

ORF - retro_cjac_1592 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 57.52 %
Parental protein coverage: 99.05 %
Number of stop codons detected: 8
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalIYLKIMGLSLFSMRHILSNFLDNMLLRSAGKINVGTKK-EDGESTAPTPRPKILRCKCHHHCPEDSVNNI
IY....G..LF.........LD.ML.....K.....KK.E.G...AP........C.C..HCP.D..NN.
RetrocopyIYIRLSGAYLFIISPVRGQYLDGMLHGTGMKPDSNWKKSENGVTLAPKDTLPF*KCDCSGHCPNDAINNT
ParentalCSTDGYCFTMIEEDDSGMPVVTSGCLGLEGSDFQCRDTPIPHQRR-SIECCKRNECNKDLHPTLPPLKNR
C.T.G.CF..IE.DD.G......GC...EG.DFQC.D.P.....R..IE.C..N.CN..L.PTLPP....
RetrocopyCVTNGHCFAIIEQDDQGETTLALGCMKYEGFDFQCKDSPKAQYIR<IIEHCLINLCNQYLQPTLPPVVIG
ParentalDFVDGPIHHKALLISVTVCSLLLVLII-LFCYFRY-KRQETRPRYSIGLEQDETYIPPGESLRDLIEQSQ
.F.DG.I....LLI...VC..........FCY..Y..R......Y....EQDE...P.GES...L..Q.Q
RetrocopyPFSDGSIRRLVLLIPMAVCIIAMIIFTSCFCYKHY<LREHLKHCYNRDFEQDEAFVPIGESPKNLSDQLQ
ParentalSSGSGSGLPLLVQRTIAKQIQMVKQIGKGRYGEVWMGKWRGEKVAVKVFF-TTEEASWFRETEIYQTVLM
SSGS.SGLPLL.Q.TIA.Q.QMV.Q.GKG.YGEVWMGKWRGEKVA.KVFF.TTEEASWF.ETEIYQTVLM
RetrocopySSGSESGLPLLFQ*TIARQTQMVRQVGKGGYGEVWMGKWRGEKVAIKVFFLTTEEASWFQETEIYQTVLM
ParentalRHENILGFIAADIKGTGSWTQLYLITDYHENGSLYDYLKSTTLDTKSMLKLAYSSVSGLCHLHTEIFSTQ
.HE.ILGF..AD...TGSW.QLYLITD.HENGSL.D.LK..TLDT...L.LAYS...GLCHLHTE...TQ
RetrocopyPHEKILGFRVADTESTGSWIQLYLITDCHENGSLHDFLKCATLDTRALL*LAYSAACGLCHLHTEVYGTQ
Parental-GKPAIAHRDLKSKNILVKKNGTCCIADLGLAVKFISDTNEVDIP-PNTRVGTKRYMPPEVLDESLNRNH
.G.P.IAH.DLKSKNIL.K.NG.CCIADLGLAVK..SDTNEV..P...T.VGTK.YM.PEVL..SLN.NH
Retrocopy<G*PTIAH*DLKSKNILIKTNGSCCIADLGLAVKLNSDTNEVNVP<LDTKVGTKCYMAPEVLNKSLNKNH
ParentalFQSYIMADMYSFGLILWEV-ARRCVSGGIVEEYQLPYHDLVPSDPSYEDMREIVCIKKLRPSFPNRWSSD
FQ.YIMAD.YSFGLI..E..A.....GG.VEE.QLPY...VPSD.S.EDM...V..K.L.P...N.....
RetrocopyFQPYIMADIYSFGLII*EM<AFHWITGGLVEE*QLPYYNMVPSDLSCEDMHAVVYVKRLWPNVSNWRDGG
ParentalECLRQMGKLMTECWAHNPASRLTALRVKKTLAKMSESQDIKL
ECL....KLM.ECWAHNPASRL.AL..KKTLAKM..SQD.K.
RetrocopyECL*AVLKLMSECWAHNPASRLIALTIKKTLAKMVQSQDVKI

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 0 .22 RPM
SRP051959_heart 0 .00 RPM 5 .10 RPM
SRP051959_kidney 0 .00 RPM 16 .04 RPM
SRP051959_liver 0 .02 RPM 4 .74 RPM
SRP051959_lung 0 .00 RPM 2 .55 RPM
SRP051959_lymph_node 0 .00 RPM 0 .11 RPM
SRP051959_skeletal_muscle 0 .00 RPM 10 .98 RPM
SRP051959_spleen 0 .00 RPM 0 .69 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_1592 retrocopy.

TSS - click to see more details

Callithrix jacchus was not studied using FANTOM5 data.

Lab - click to see more details

retro_cjac_1592 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_1592 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 ENSCJAG00000006930 1 retrocopy
retro_cjac_1592 ,


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