RetrogeneDB ID:

retro_ptro_927

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:14:62884719..62884905(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS28
Ensembl ID:ENSPTRG00000040141
Aliases:None
Description:ribosomal protein S28 [Source:HGNC Symbol;Acc:10418]


Retrocopy-Parental alignment summary:






>retro_ptro_927
ATGGACACCAGCCGTGTGCGGCATATCAAGCGAGCCTGGGGCACCATGGTACTGGGCATGACCAGCTCTCAGGGACAGTG
TATGGGGATGGACATGGAATTTGTGGACAACAGGAGCCACTCCATTATCCACAATGTCAAAGGCCCCGTGTGCAAGGATG
ACGTGCTCACCCTGTTGGAGTCAAAG

ORF - retro_ptro_927 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.52 %
Parental protein coverage: 89.86 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMDTSRVQPIKLARVTKVLGRTGSQGQCTQVRVEFMDDTSRSIIRNVKGPVREGDVLTLLESE
MDTSRV..IK.A..T.VLG.T.SQGQC.....EF.D..S.SII.NVKGPV...DVLTLLES.
RetrocopyMDTSRVRHIKRAWGTMVLGMTSSQGQCMGMDMEFVDNRSHSIIHNVKGPVCKDDVLTLLESK

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 177 .49 RPM
SRP007412_cerebellum 0 .00 RPM 71 .02 RPM
SRP007412_heart 0 .00 RPM 67 .79 RPM
SRP007412_kidney 0 .00 RPM 248 .76 RPM
SRP007412_liver 0 .00 RPM 135 .03 RPM
SRP007412_testis 0 .00 RPM 11 .07 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_927 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_927 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_927 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_1352
Gorilla gorilla retro_ggor_1052

Parental genes homology:
Parental genes homology involve 7 parental genes, and 26 retrocopies.

Species Parental gene accession Retrocopies number
Homo sapiens ENSG000002339279 retrocopies
Loxodonta africana ENSLAFG000000299232 retrocopies
Macaca mulatta ENSMMUG000000288953 retrocopies
Monodelphis domestica ENSMODG000000038901 retrocopy
Mus musculus ENSMUSG000000672883 retrocopies
Pan troglodytes ENSPTRG00000040141 6 retrocopies
Rattus norvegicus ENSRNOG000000428862 retrocopies



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