RetrogeneDB ID:

retro_mmul_2245

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:7:98344610..98345285(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPLP0
Ensembl ID:ENSMMUG00000009157
Aliases:None
Description:acidic ribosomal phosphoprotein PO [Source:RefSeq peptide;Acc:NP_001182357]


Retrocopy-Parental alignment summary:






>retro_mmul_2245
ATGCCCAGGGAAAACAGGGCAACCTGGAAGTCCAACTACTTCCTTAAGATCATCCAGCTTTTGGATAATTATCCAAAATG
TTTCATCATGAGAGCAGACACTGTGGGCTCCAAGCAGACACAGTAGATCCACTCTTCCCTCCAAGGGAAGGCCATGGTGC
CGACGGGCAGAAACACCATGATGCGCAAAGCCACCCAAGGACACCTGGAAAACAGCCCAGCTCTGGAGAAACTGTTGCCT
CCTCTCCAGGGGAATGTGGGCTTTGCATTCACCAAAGAGTACCTCACTGAGATCAGGGACCTGCTGCTGGCCAATAAGGT
GCCAGCTGCCGCCCGTGCTGGTGCCATTGGCCCATGTGAAGTCACTGTACCAGCCCAGAACACTGGTCTGGGGCCCGAGA
AGATTTCCTTTTTCCAGGCTTTAGGCATTACCACTAAAATCTCCAGGGGCACCACTGAAATCCTGAGTGATGTGCAGCTG
ATCAAGACTGGAGACAGAGTGGGAGCCAGCGAAGCCACACTGCTGAACGTGCTGAACATCTCTTCCTTCTCCTTTGGGCT
GGTCATCCAGCGGGTGTTCAACAATGGTAGCATCTACAACCCTGAAGTGCTTGACATCACAGAAGAAACTCTGTATTCTG
GCTTCCTGGAGGGTGTCTGCAATGTTGCCAGTGTG

ORF - retro_mmul_2245 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.89 %
Parental protein coverage: 70.75 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMPREDRATWKSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHLE
MPRE.RATWKSNYFLKIIQLLD.YPKCFI..AD.VGSKQ.Q.I..SL.GKA.V..G.NTMMRKA..GHLE
RetrocopyMPRENRATWKSNYFLKIIQLLDNYPKCFIMRADTVGSKQTQ*IHSSLQGKAMVPTGRNTMMRKATQGHLE
ParentalNNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTVPAQNTGLGPEKTSFFQA
N.PALEKLLP...GNVGF.FTKE.LTEIRD.LLANKVPAAARAGAI.PCEVTVPAQNTGLGPEK.SFFQA
RetrocopyNSPALEKLLPPLQGNVGFAFTKEYLTEIRDLLLANKVPAAARAGAIGPCEVTVPAQNTGLGPEKISFFQA
ParentalLGITTKISRGTIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFGLVIQQVFDNGSIYNPEVLDITEET
LGITTKISRGT.EILSDVQLIKTGD.VGASEATLLN.LNIS.FSFGLVIQ.VF.NGSIYNPEVLDITEET
RetrocopyLGITTKISRGTTEILSDVQLIKTGDRVGASEATLLNVLNISSFSFGLVIQRVFNNGSIYNPEVLDITEET
ParentalLHSRFLEGVRNVASV
L.S.FLEGV.NVASV
RetrocopyLYSGFLEGVCNVASV

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 0 .00 RPM 94 .01 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 185 .08 RPM
SRP007412_cerebellum 0 .00 RPM 103 .13 RPM
SRP007412_heart 0 .00 RPM 236 .07 RPM
SRP007412_kidney 0 .00 RPM 348 .82 RPM
SRP007412_liver 0 .00 RPM 716 .47 RPM
SRP007412_testis 0 .00 RPM 154 .35 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_2245 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_2245 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_2245 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_1403
Gorilla gorilla retro_ggor_1088

Parental genes homology:
Parental genes homology involve 30 parental genes, and 120 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000037562 retrocopies
Ailuropoda melanoleuca ENSAMEG000000051444 retrocopies
Canis familiaris ENSCAFG000000102275 retrocopies
Choloepus hoffmanni ENSCHOG000000027452 retrocopies
Callithrix jacchus ENSCJAG000000086773 retrocopies
Cavia porcellus ENSCPOG000000218125 retrocopies
Equus caballus ENSECAG000000158162 retrocopies
Erinaceus europaeus ENSEEUG000000075531 retrocopy
Felis catus ENSFCAG000000133541 retrocopy
Homo sapiens ENSG000000891577 retrocopies
Gorilla gorilla ENSGGOG000000265825 retrocopies
Macropus eugenii ENSMEUG0000001640912 retrocopies
Myotis lucifugus ENSMLUG0000000197011 retrocopies
Macaca mulatta ENSMMUG00000009157 2 retrocopies
retro_mmul_2245 , retro_mmul_939,
Mustela putorius furoENSMPUG000000030554 retrocopies
Mus musculus ENSMUSG000000672742 retrocopies
Nomascus leucogenys ENSNLEG0000000029211 retrocopies
Oryctolagus cuniculus ENSOCUG000000057492 retrocopies
Otolemur garnettii ENSOGAG000000038434 retrocopies
Procavia capensis ENSPCAG000000164296 retrocopies
Petromyzon marinus ENSPMAG000000013391 retrocopy
Pongo abelii ENSPPYG000000050225 retrocopies
Pteropus vampyrus ENSPVAG000000031103 retrocopies
Rattus norvegicus ENSRNOG000000011483 retrocopies
Sarcophilus harrisii ENSSHAG000000016232 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000113274 retrocopies
Tupaia belangeri ENSTBEG000000054981 retrocopy
Tarsius syrichta ENSTSYG000000097327 retrocopies
Tursiops truncatus ENSTTRG000000056581 retrocopy
Vicugna pacos ENSVPAG000000121562 retrocopies



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