RetrogeneDB ID:

retro_pabe_3587

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:Un:31538376..31539507(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CTBP2
Ensembl ID:ENSPPYG00000002746
Aliases:None
Description:C-terminal binding protein 2 [Source:HGNC Symbol;Acc:2495]


Retrocopy-Parental alignment summary:






>retro_pabe_3587
ATGACATTTGTGGATAAGTGCAAACTTAAGAGAGAGCGATTGGACAGAATTTCTGTAGGAATTCGCCTCCACATCATGAA
AGGCCCCCTGCACCCCTGCCCTGTGGTGGCGCTGCTGGACGGCCGCGACTGCATTGTGGATATGCACATCCTGAAGGACC
TGGCCACCGTGGCCTTCTGTGACGTGCAGTCCACGCAGGAGATCCACGACAAGGTTCTAAACAGAGTCGTGGGCGCCATG
ATGTACCACACCATAACCCCCACCAGGGAGGACCTGGCAAATTTCAAGGCCCTGAGAGTGATCGTGCGGGTTGGCAGTGG
CTATGACAACGTGAACATCAAGGCTGCTGGCGAGCTCGGAATTTCTGTGTGCAACATCCCGTCCGCAGCCGTGGAAGAGA
CAGCCGGCTCCACCATCTGCCACATCCTCAACATGCACTAGAGGAACACATGGCTGTAACAGGCACTGTGGGAAGGCAAG
CGGGTTCAGAGCGTGGAGCAGATCTGCGAGGTGGCCTCGGGAGTGGCCCCTGTTCGTGGGGAGACGCTGGGCCTCATCGG
CTACAGTCGCACGCAGCAGGCTTTTGAAGTTCCAGCCACCGCCTTTGGATTCAGCGTCATATTTTATTACCCCTACTTGC
AGGATGGGATCGAGCAGTCCCAGGGCGTGCAGAGGGTCTACACAAAGCAGGATTTGCTGTATCAGAGCGACTGCGTCTCC
TTGCACAGCAGTCTCAGCGAACATAAACACCACCTCATCAATGACTTTACCATAAAGCAGAAGAGGCAGGGAGCATTCCT
TGTGAACACAGCCCGTGGTGGCCTGGTGGATGAGAAAGCCTTAGCACAGGCCCTCAAGGAGGGCAAGATACGAGAGGCAG
CCCTCGACGTGAATGAGTCATAGCCCTTTAGCTTGGCTCAGGGTCCATTGAAGATGTCCCCAATCTCATCTGCTCTCCTC
ACACTGCCTGCTACAGCGAGCAGGCGTCACTGGAGATGAAGGAGGCAGCTGCCACCGAGATCCGCTGAGCCATCACAGGT
CCCATCCCAGGAAGCTTAAGAAACTGTGAACAAGGAATTCTTTGTCACATCTGTGCTTTGGTCAGTAACAGACCAGCAAG
CAATTCATCCA

ORF - retro_pabe_3587 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.31 %
Parental protein coverage: 84.94 %
Number of stop codons detected: 4
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMALVDKHKVKRQRLDRICEGIRPQIMNGPLHPRPLVALLDGRDCTVEMPILKDLATVAFCDAQSTQEIHE
M..VDK.K.KR.RLDRI..GIR..IM.GPLHP.P.VALLDGRDC.V.M.ILKDLATVAFCD.QSTQEIH.
RetrocopyMTFVDKCKLKRERLDRISVGIRLHIMKGPLHPCPVVALLDGRDCIVDMHILKDLATVAFCDVQSTQEIHD
ParentalKVLNEAVGAMMYHTITLTREDLEKFKALRVIVRIGSGYDNVDIKAAGELGIAVCNIPSAAVEETADSTIC
KVLN..VGAMMYHTIT.TREDL..FKALRVIVR.GSGYDNV.IKAAGELGI.VCNIPSAAVEETA.STIC
RetrocopyKVLNRVVGAMMYHTITPTREDLANFKALRVIVRVGSGYDNVNIKAAGELGISVCNIPSAAVEETAGSTIC
ParentalHILNLYRRNTWLYQALREGTRVQSVEQIREVASGAARIRGETLGLIGFGRTGQAVAVRAKAFGFSVIFYD
HILN...RNTWL.QAL.EG.RVQSVEQI.EVASG.A..RGETLGLIG..RT.QA..V.A.AFGFSVIFY.
RetrocopyHILNMH*RNTWL*QALWEGKRVQSVEQICEVASGVAPVRGETLGLIGYSRTQQAFEVPATAFGFSVIFYY
ParentalPYLQDGIERSLGVQRVYTLQDLLYQSDCVSLHCNLNEHNHHLINDFTIKQMRQGAFLVNAARGGLVDEKA
PYLQDGIE.S.GVQRVYT.QDLLYQSDCVSLH..L.EH.HHLINDFTIKQ.RQGAFLVN.ARGGLVDEKA
RetrocopyPYLQDGIEQSQGVQRVYTKQDLLYQSDCVSLHSSLSEHKHHLINDFTIKQKRQGAFLVNTARGGLVDEKA
ParentalLAQALKEGRIRGAALDVHESEPFSFAQGPLK-DAPNLICTPHTAWYSEQASLEMREAAATEIRRAITGRI
LAQALKEG.IR.AALDV.ES.PFS.AQGPLK.D.PNLIC.PHTA.YSEQASLEM.EAAATEIR.AITG.I
RetrocopyLAQALKEGKIREAALDVNES*PFSLAQGPLK<DVPNLICSPHTACYSEQASLEMKEAAATEIR*AITGPI
Parental-PESLRNC-VNKEFFVTSAPWSVIDQQAIHP
.P..L....VNKEFFVTS..WSV.DQQAIHP
Retrocopy<PRKLKKL<VNKEFFVTSVLWSVTDQQAIHP

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
SRP007412_brain_prefrontal_cortex 0 .00 RPM 7 .96 RPM
SRP007412_cerebellum 0 .00 RPM 15 .81 RPM
SRP007412_heart 0 .00 RPM 3 .97 RPM
SRP007412_kidney 0 .00 RPM 15 .51 RPM
SRP007412_liver 0 .12 RPM 2 .26 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_3587 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_3587 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_3587 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 5 parental genes, and 15 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000127751 retrocopy
Callithrix jacchus ENSCJAG000000125392 retrocopies
Homo sapiens ENSG000001750291 retrocopy
Oryctolagus cuniculus ENSOCUG000000070761 retrocopy
Pongo abelii ENSPPYG00000002746 10 retrocopies



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