RetrogeneDB ID:

retro_pabe_270

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:1:88366801..88367041(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:COX7B
Ensembl ID:ENSPPYG00000020494
Aliases:None
Description:Cytochrome c oxidase subunit 7B, mitochondrial [Source:UniProtKB/Swiss-Prot;Acc:Q5R9K2]


Retrocopy-Parental alignment summary:






>retro_pabe_270
ATGTTTTCCTTGGTCAAAAATTCATTAAGTCGTCTCCATGTTCCAAGCATTCGGCAAAAAATGGCAAGGCAGAGCCACCG
GAAATGTACATCTGATTTTCATGACAAAGACGGTAATGCTGTATTAGCTAGTGGAGACACCGTCTGTATTGCTGTATGGA
CATACGTAGCAACACAAATTAGAATAAAAGGGAACCTGTCCGCTGTTGGCAGAGTCACCCTAAGGGAATGGAGAGATCAG

ORF - retro_pabe_270 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.25 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMFPLVKNALNRLQVRSIQQTMARQSHQKRTPDFHDKYGNAVLASGATFCIVTWTYVATQVGIEWNLSPVG
MF.LVKN.L.RL.V.SI.Q.MARQSH.K.T.DFHDK.GNAVLASG.T.CI..WTYVATQ..I..NLS.VG
RetrocopyMFSLVKNSLSRLHVPSIRQKMARQSHRKCTSDFHDKDGNAVLASGDTVCIAVWTYVATQIRIKGNLSAVG
ParentalRVTPKEWRNQ
RVT..EWR.Q
RetrocopyRVTLREWRDQ

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 35 .28 RPM
SRP007412_cerebellum 0 .00 RPM 65 .66 RPM
SRP007412_heart 0 .00 RPM 213 .64 RPM
SRP007412_kidney 0 .00 RPM 74 .08 RPM
SRP007412_liver 0 .00 RPM 45 .60 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_270 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_270 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_270 has 4 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_462
Pan troglodytes retro_ptro_349
Gorilla gorilla retro_ggor_443
Macaca mulatta retro_mmul_571

Parental genes homology:
Parental genes homology involve 20 parental genes, and 101 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000061536 retrocopies
Bos taurus ENSBTAG000000477683 retrocopies
Callithrix jacchus ENSCJAG000000040455 retrocopies
Cavia porcellus ENSCPOG000000147812 retrocopies
Echinops telfairi ENSETEG000000166959 retrocopies
Felis catus ENSFCAG000000230912 retrocopies
Homo sapiens ENSG000001311744 retrocopies
Gorilla gorilla ENSGGOG000000233479 retrocopies
Loxodonta africana ENSLAFG000000229964 retrocopies
Microcebus murinus ENSMICG000000145213 retrocopies
Myotis lucifugus ENSMLUG000000224433 retrocopies
Macaca mulatta ENSMMUG000000158615 retrocopies
Mus musculus ENSMUSG000000312315 retrocopies
Pongo abelii ENSPPYG00000020494 18 retrocopies
Pan troglodytes ENSPTRG000000220499 retrocopies
Pteropus vampyrus ENSPVAG000000032372 retrocopies
Rattus norvegicus ENSRNOG000000284515 retrocopies
Sus scrofa ENSSSCG000000309702 retrocopies
Tursiops truncatus ENSTTRG000000043873 retrocopies
Vicugna pacos ENSVPAG000000013242 retrocopies



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