RetrogeneDB ID:

retro_ptro_1567

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:2A:110593438..110594047(+)
Located in intron of:ENSPTRG00000012346
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ACTR1A
Ensembl ID:ENSPTRG00000002894
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_1567
GTGGAGTCTTACGATACAATCACCAACCAGCCTGTCATGATCGACAATGAATCTGGTGTGATTAAAGCTGGTTTTGCTGG
TGATCAGATCCACAAATACTGCTTTCCAAAGTATGTGGGCCTACCCATGCATATTCGTATCATGGCAGGAGCCCTTGAAG
GTGACATCTTCATTGGCTTCAAAGCCAAGGAGCACCAAGGGCTGCTCTCGATCTGCTATCTCACGGAGCATGGCATTGTC
AAGGACTGGAATGACATGGAACACATCTGGCAATATGTCTATTCTAAGGACCAGCTGCAGACTTTCTCAGAGGAGCATCT
CGTGCTCCTCACTGAGGCACCTTTAAACCCACAAAGACACCAGGAATGAGCTGCCAACGTTTTCTTCAAGAGCTTCAATG
TGCCTGCTATTTTCATCTCCATGTAAGCTGTGCTCAGCCTTTATGCCACAGGCAGGACCACGGGGGTGGTGCTGGATTCT
GGGGATGGCATCACCCATGCTGTGCCCATCTATCAGGGCTTTGCCATGCCCCACTCCATCATGCGAATTGACATCGCAAG
CCGGAACATCTCTCGCTTCCTGCACCTCTACCTGCATAAGGAGGGCTAT

ORF - retro_ptro_1567 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.27 %
Parental protein coverage: 53.99 %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMESYDVIANQPVVIDNGSGVIKAGFAGDQIPKYCFPNYVGRPKHVRVMAGALEGDIFIGPKAEEHRGLLS
.ESYD.I.NQPV.IDN.SGVIKAGFAGDQI.KYCFP.YVG.P.H.R.MAGALEGDIFIG.KA.EH.GLLS
RetrocopyVESYDTITNQPVMIDNESGVIKAGFAGDQIHKYCFPKYVGLPMHIRIMAGALEGDIFIGFKAKEHQGLLS
ParentalIRYPMEHGIVKDWNDMERIWQYVYSKDQLQTFSEEHPVLLTEAPLNPRKNRERAAEVFFETFNVPALFIS
I.Y..EHGIVKDWNDME.IWQYVYSKDQLQTFSEEH.VLLTEAPLNP....E.AA.VFF..FNVPA.FIS
RetrocopyICYLTEHGIVKDWNDMEHIWQYVYSKDQLQTFSEEHLVLLTEAPLNPQRHQE*AANVFFKSFNVPAIFIS
ParentalMQAVLSLYATGRTTGVVLDSGDGVTHAVPIYEGFAMPHSIMRIDIAGRDVSRFLRLYLRKEGY
M.AVLSLYATGRTTGVVLDSGDG.THAVPIY.GFAMPHSIMRIDIA.R..SRFL.LYL.KEGY
RetrocopyM*AVLSLYATGRTTGVVLDSGDGITHAVPIYQGFAMPHSIMRIDIASRNISRFLHLYLHKEGY

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 171 .79 RPM
SRP007412_cerebellum 0 .00 RPM 115 .83 RPM
SRP007412_heart 0 .03 RPM 53 .25 RPM
SRP007412_kidney 0 .03 RPM 80 .70 RPM
SRP007412_liver 0 .00 RPM 70 .57 RPM
SRP007412_testis 0 .00 RPM 71 .34 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_1567 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_1567 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_1567 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2141
Pongo abelii retro_pabe_1930

Parental genes homology:
Parental genes homology involve 7 parental genes, and 33 retrocopies.

Species Parental gene accession Retrocopies number
Homo sapiens ENSG000001381071 retrocopy
Mus musculus ENSMUSG000000252281 retrocopy
Nomascus leucogenys ENSNLEG000000151571 retrocopy
Pongo abelii ENSPPYG000000026051 retrocopy
Pan troglodytes ENSPTRG00000002894 1 retrocopy
retro_ptro_1567 ,
Pan troglodytes ENSPTRG0000001889027 retrocopies
Drosophila melanogaster FBgn00117451 retrocopy



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