RetrogeneDB ID:

retro_pabe_162

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:10:52062714..52063293(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSPPYG00000002282
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL9
Ensembl ID:ENSPPYG00000014675
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_pabe_162
ATGAAGACCATTCTCAGCAATCAGACTGTCGACATTCCAGAAAAGGTCGACATTACTCTGAAGGGACGCACAGTTATCGT
GAAGGGCCCCAGAGGAACCCTGCGGAGGAACTTCAATCACATCAATGTAGAACTCAGTCTTCTTGGAAAGAAGAAAAAGA
GGCTCCGGGTTGACAAATGGTGGGGTAACAGAAAGGAACTGGCTACCGTTCGGACTATTTGTAGTCATGTACAGAACATG
ATCAAGGGAGTTACACTGGGCTTCCGTTACAAGATGAGGTCTGTGTATGCTCACTTCCCCATCAACGTCGTTATCCAGGA
GAATGGGTCTCTTGTTGAAATCCGAAATTTCTTGGGTGAAAAATACATCCGCAGGGCTCGGATGAGACCAGGTGTTGCTT
GTTCGGTATCTCAAGCCCAGAAAGATGAATTAATCCTTGAAGGAAATGACATTGAGCTTGTTTCAAATTCAGCGGCTTTG
ATTCAGCAAGCCACAACAGTTAAAAACAAGGATATCAGGAAATTTTTGGATGGTATCTATGTCTCTGAAAAAGGAACTGT
TCAGCAGGCTGATGAATAA

ORF - retro_pabe_162 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 98.44 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMKTILSNQTVDIPENVDITLKGRTVIVKGPRGTLRRDFNHINVELSLLGKKKKRLRVDKWWGNRKELATV
MKTILSNQTVDIPE.VDITLKGRTVIVKGPRGTLRR.FNHINVELSLLGKKKKRLRVDKWWGNRKELATV
RetrocopyMKTILSNQTVDIPEKVDITLKGRTVIVKGPRGTLRRNFNHINVELSLLGKKKKRLRVDKWWGNRKELATV
ParentalRTICSHVQNMIKGVTLGFRYKMRSVYAHFPINVVIQENGSLVEIRNFLGEKYIRRVRMRPGVACSVSQAQ
RTICSHVQNMIKGVTLGFRYKMRSVYAHFPINVVIQENGSLVEIRNFLGEKYIRR.RMRPGVACSVSQAQ
RetrocopyRTICSHVQNMIKGVTLGFRYKMRSVYAHFPINVVIQENGSLVEIRNFLGEKYIRRARMRPGVACSVSQAQ
ParentalKDELILEGNDIELVSNSAALIQQATTVKNKDIRKFLDGIYVSEKGTVQQADE
KDELILEGNDIELVSNSAALIQQATTVKNKDIRKFLDGIYVSEKGTVQQADE
RetrocopyKDELILEGNDIELVSNSAALIQQATTVKNKDIRKFLDGIYVSEKGTVQQADE

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 36 .05 RPM
SRP007412_cerebellum 0 .00 RPM 52 .77 RPM
SRP007412_heart 0 .15 RPM 52 .29 RPM
SRP007412_kidney 0 .17 RPM 97 .75 RPM
SRP007412_liver 0 .40 RPM 100 .40 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_162 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_162 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_162 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 29 parental genes, and 555 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000073171 retrocopy
Ailuropoda melanoleuca ENSAMEG0000000318731 retrocopies
Bos taurus ENSBTAG000000145183 retrocopies
Canis familiaris ENSCAFG0000001600828 retrocopies
Callithrix jacchus ENSCJAG0000000072329 retrocopies
Danio rerio ENSDARG000000373501 retrocopy
Dasypus novemcinctus ENSDNOG0000000741118 retrocopies
Equus caballus ENSECAG000000164897 retrocopies
Erinaceus europaeus ENSEEUG0000000439439 retrocopies
Felis catus ENSFCAG0000001228434 retrocopies
Homo sapiens ENSG0000016368228 retrocopies
Gorilla gorilla ENSGGOG0000002279926 retrocopies
Gadus morhua ENSGMOG000000010021 retrocopy
Loxodonta africana ENSLAFG0000001202138 retrocopies
Macropus eugenii ENSMEUG000000167228 retrocopies
Microcebus murinus ENSMICG0000001677818 retrocopies
Myotis lucifugus ENSMLUG0000000459734 retrocopies
Macaca mulatta ENSMMUG0000000855322 retrocopies
Monodelphis domestica ENSMODG000000205537 retrocopies
Nomascus leucogenys ENSNLEG0000001710026 retrocopies
Otolemur garnettii ENSOGAG0000000493520 retrocopies
Procavia capensis ENSPCAG0000000583422 retrocopies
Pongo abelii ENSPPYG00000014675 10 retrocopies
Pteropus vampyrus ENSPVAG0000000091949 retrocopies
Sarcophilus harrisii ENSSHAG000000049188 retrocopies
Sus scrofa ENSSSCG0000002519215 retrocopies
Tupaia belangeri ENSTBEG0000000604218 retrocopies
Tursiops truncatus ENSTTRG0000001428913 retrocopies
Vicugna pacos ENSVPAG000000020231 retrocopy



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