RetrogeneDB ID:

retro_ptro_2174

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:5:98959832..98961000(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DDX18
Ensembl ID:ENSPTRG00000012391
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_2174
GGGGAATCTCAAGAAGAAAGTGCCGAGAATCCTAAAGAAACAGAAAATAATATGGAGAAGCCAGATAATGATGAAGATGA
CAGTGAGGTGCCCAGCCTGCCCCTGGGACTGACAGGAGCTGTTGAATATACTTCATTTGCTTCTCTGTATAATCTTGTCA
ATGAAAACACTCTGAAGGCAATAAAAGAAATGAGTTTTACAAATATGACTGAAATTCAGCATAAAAGTATCAGACCACTT
CTGGAAAGCAGGGATCGTCTAGCAGCTGCAAAAACAGGAAGTGGTAAAACCCTGGCTTTTCTTATCCCTGCAGTTGAACT
CATGGTTAAGTTAAAGTTCATGCCCAGGAATGGAATAGGAGTCCTTATTCTCTCACCTATTGGAGAACTAGCCATGGAAA
CTTTTGGTGGTTCTTAAGGAGCAAATGACTCACCACGTGCATACCTATGGGTTGATAATGGGTGGGAGTAACAGATCTGC
TGAAGCAGGGAAACTTGCTAATGGGATCAACATCATTGTGGCCACATCAGGCCGTCTGCTGGGCCATATGCAGAATACCC
CAGGGTTTATGTATAAAAACCTGCAGTGTCTGGTTATTGATGAAGCTGATCGTATCTTGGATGTTGGGTTTGAAGAGGAG
TTAAAGCAAATTATTAAACTTTTGCCAACTCATAGACAGACTATGCTCTTTTCTGCCACCCAAACTCAAAACGTTGAAGA
CCTGGCAAGGATTTCTCTGAAAAAGGAGCCGTTGTATGTTGGTGATGATGATGATAATGCTAATGAAACAGTGTATGGTC
TTGAGCAAGGATATGTTGTTTGTCCTTATGAAAAGAGATTCATTCTGCTCTTTACATTCCTTAAGAACTGAAAGAAGAAG
CTTATGGTCTTCTTTTCATCTTGTATGTCCATGAAATACCACTGTGAGTTGCTGAACTACATTTATTTGCTCATCTTGGC
CATTCATGAAAAGCAAAAGCAAAGTAAGCATACAACCACATTCTTCCAATTCTCCAGCGCAGATTTGGGAATACTATTGT
GCACAGATGTGGCAGCAAGAGGACTGGACATTACTGAAGTGGACTGCATTGTTCAGTATGACCCTCCAGATGACCCTAAG
GAATATATTCATAGTGTGGGTAGAACAGCCAGAGGCCTAAATGGGAGA

ORF - retro_ptro_2174 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.21 %
Parental protein coverage: 58.21 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalGKSEEESAETPKETENNVDKPDNDEDESEVPNLPLGLTGAFEDTSFASLCNLVNENTLKAIKEMGFTNMT
G.S.EESAE.PKETENN..KPDNDED.SEVP.LPLGLTGA.E.TSFASL.NLVNENTLKAIKEM.FTNMT
RetrocopyGESQEESAENPKETENNMEKPDNDEDDSEVPSLPLGLTGAVEYTSFASLYNLVNENTLKAIKEMSFTNMT
ParentalEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFMPRNGTGVLILSPTRELAMQTFG-VLK
EIQHKSIRPLLE.RD.LAAAKTGSGKTLAFLIPAVEL.VKL.FMPRNG.GVLILSP..ELAM.TFG.VLK
RetrocopyEIQHKSIRPLLESRDRLAAAKTGSGKTLAFLIPAVELMVKLKFMPRNGIGVLILSPIGELAMETFG>VLK
ParentalELMTHHVHTYGLIMGGSNRSAEAQKLANGINIIVATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVG
E.MTHHVHTYGLIMGGSNRSAEA.KLANGINIIVAT.GRLL.HMQNTPGFMYKNLQCLVIDEADRILDVG
RetrocopyEQMTHHVHTYGLIMGGSNRSAEAGKLANGINIIVATSGRLLGHMQNTPGFMYKNLQCLVIDEADRILDVG
ParentalFEEELKQIIKLLPTRRQTMLFSATQTRKVEDLARISLKKEPLYVGVDDDKANATVDGLEQGYVVCPSEKR
FEEELKQIIKLLPT.RQTMLFSATQT..VEDLARISLKKEPLYVG.DDD.AN.TV.GLEQGYVVCP.EKR
RetrocopyFEEELKQIIKLLPTHRQTMLFSATQTQNVEDLARISLKKEPLYVGDDDDNANETVYGLEQGYVVCPYEKR
ParentalFLLLFTFLKKNRKKKLMVFFSSCMSVKYHYELLNYIDLPVLAIHGKQKQNKRTTTFFQFCNADSGTLLCT
F.LLFTFL.KN.KKKLMVFFSSCMS.KYH.ELLNYI.L..LAIH.KQKQ.K.TTTFFQF..AD.G.LLCT
RetrocopyFILLFTFL-KN*KKKLMVFFSSCMSMKYHCELLNYIYLLILAIHEKQKQSKHTTTFFQFSSADLGILLCT
ParentalDVAARGLDIPEVDWIVQYDPPDDPKEYIHRVGRTARGLNGR
DVAARGLDI.EVD.IVQYDPPDDPKEYIH.VGRTARGLNGR
RetrocopyDVAARGLDITEVDCIVQYDPPDDPKEYIHSVGRTARGLNGR

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 18 .52 RPM
SRP007412_cerebellum 0 .00 RPM 42 .48 RPM
SRP007412_heart 0 .00 RPM 23 .87 RPM
SRP007412_kidney 0 .00 RPM 31 .98 RPM
SRP007412_liver 0 .00 RPM 26 .09 RPM
SRP007412_testis 0 .21 RPM 36 .88 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_2174 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_2174 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_2174 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_3223

Parental genes homology:
Parental genes homology involve 10 parental genes, and 29 retrocopies.

Species Parental gene accession Retrocopies number
Echinops telfairi ENSETEG000000171662 retrocopies
Homo sapiens ENSG000000882056 retrocopies
Gorilla gorilla ENSGGOG000000284204 retrocopies
Microcebus murinus ENSMICG000000175901 retrocopy
Myotis lucifugus ENSMLUG000000176071 retrocopy
Macaca mulatta ENSMMUG000000213431 retrocopy
Monodelphis domestica ENSMODG000000005331 retrocopy
Nomascus leucogenys ENSNLEG000000117694 retrocopies
Pongo abelii ENSPPYG000000127964 retrocopies
Pan troglodytes ENSPTRG00000012391 5 retrocopies



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