RetrogeneDB ID:

retro_pabe_3741

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:X:42679952..42680373(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ATP5G2
Ensembl ID:ENSPPYG00000004586
Aliases:None
Description:ATP synthase lipid-binding protein, mitochondrial precursor [Source:RefSeq peptide;Acc:NP_001125678]


Retrocopy-Parental alignment summary:






>retro_pabe_3741
ATGTTCGCCGGCTCCAAGTTCGTCTCCTCTCCCTCATTGGTCAAGAGCACCTCACAGCTGCTGAGCCGTCCGCTATCTGC
AGTGGTGCTGAAATGACCGGAGATACTGACAGATGAGAGCCTCAGCAGCTTGGCAGTCTCACGTCCCCTTACCTCTTGTC
TCTAGCCGCAGCTTCCAAACCAGCACCATTTCAAGGGACATTGACACAACAGCCAAGTTCATTGGAGCTGGGGCTGCCAC
AGTTGGGGTGGCTGGCTCTGGGGCTCAGATTGGGACTGTGTTTGGGAGCCTCATCATTGGTTATGCCAGGAACCCTTCTC
TGAAGCAACAGCTCTTCTCCTACACCATTCTGGGCTTTGCCCTCTGAGAGGCCATGGGGTGCTTTTGCCTGATGGTGGCC
TTTCTCATCCTCTCTGCCATG

ORF - retro_pabe_3741 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.73 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMFSCSKFISTPSLVKSTSQLLSRPLSAVVLKRPEILTDESLSSLAVSR-PLTSLVSSRNFQTSAISRDID
MF..SKF.S.PSLVKSTSQLLSRPLSAVVLK.PEILTDESLSSLAVSR.PL..LVSSR.FQTS.ISRDID
RetrocopyMFAGSKFVSSPSLVKSTSQLLSRPLSAVVLK*PEILTDESLSSLAVSR>PLP-LVSSRSFQTSTISRDID
ParentalTAAKFIGAGAATVGVAGSGAGIGTVFGSLIIGYARNPSLKQQLFSYAILGFALSEAMGLFCLMVAFLILF
T.AKFIGAGAATVGVAGSGA.IGTVFGSLIIGYARNPSLKQQLFSY.ILGFAL.EAMG.FCLMVAFLIL.
RetrocopyTTAKFIGAGAATVGVAGSGAQIGTVFGSLIIGYARNPSLKQQLFSYTILGFAL*EAMGCFCLMVAFLILS
ParentalAM
AM
RetrocopyAM

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 .17 RPM 52 .19 RPM
SRP007412_cerebellum 0 .00 RPM 28 .21 RPM
SRP007412_heart 0 .06 RPM 55 .03 RPM
SRP007412_kidney 0 .13 RPM 84 .42 RPM
SRP007412_liver 0 .06 RPM 50 .06 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_3741 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_3741 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_3741 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_4813
Pan troglodytes retro_ptro_3202
Gorilla gorilla retro_ggor_2999

Parental genes homology:
Parental genes homology involve 30 parental genes, and 260 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000000061918 retrocopies
Bos taurus ENSBTAG0000000573511 retrocopies
Cavia porcellus ENSCPOG000000228893 retrocopies
Equus caballus ENSECAG000000230212 retrocopies
Erinaceus europaeus ENSEEUG000000030511 retrocopy
Echinops telfairi ENSETEG0000000596840 retrocopies
Felis catus ENSFCAG0000000150213 retrocopies
Homo sapiens ENSG000001353906 retrocopies
Gorilla gorilla ENSGGOG000000156415 retrocopies
Macropus eugenii ENSMEUG0000000466167 retrocopies
Microcebus murinus ENSMICG000000116864 retrocopies
Myotis lucifugus ENSMLUG0000001186013 retrocopies
Macaca mulatta ENSMMUG000000162413 retrocopies
Mustela putorius furoENSMPUG000000059276 retrocopies
Mus musculus ENSMUSG000000626831 retrocopy
Nomascus leucogenys ENSNLEG000000176864 retrocopies
Oryctolagus cuniculus ENSOCUG000000089334 retrocopies
Otolemur garnettii ENSOGAG000000036114 retrocopies
Ochotona princeps ENSOPRG000000029781 retrocopy
Procavia capensis ENSPCAG000000086793 retrocopies
Pongo abelii ENSPPYG00000004586 7 retrocopies
Pongo abelii ENSPPYG000000089099 retrocopies
Pan troglodytes ENSPTRG000000050236 retrocopies
Pteropus vampyrus ENSPVAG000000122911 retrocopy
Rattus norvegicus ENSRNOG000000153206 retrocopies
Sorex araneus ENSSARG000000010277 retrocopies
Sarcophilus harrisii ENSSHAG000000057264 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000082173 retrocopies
Tupaia belangeri ENSTBEG000000057484 retrocopies
Tarsius syrichta ENSTSYG000000034334 retrocopies



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