RetrogeneDB ID:

retro_pabe_1201

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:14:96190021..96190357(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL15
Ensembl ID:ENSPPYG00000014065
Aliases:None
Description:60S ribosomal protein L15 [Source:UniProtKB/Swiss-Prot;Acc:Q5NVE0]


Retrocopy-Parental alignment summary:






>retro_pabe_1201
GGTAAGCCAAGATGCATCCAGGAGCTATGGAGAAAGAAGCAGTCTGATGTCACGCGCTTTCTTCTGAGGGTCCGCTGCTG
GCAGTACCGCCAACTCTCTGCTCTCCACAGTGCTCCCTGCCCCACCTGGCCTGATAAAGCGCACCGACTGGGCTACAAGG
CCAAACAAGGTTACATTATATGTAGGATTCGTGTTCGCCGTGGTGGCCGAAAACACCCGGTTCCTAAGGGTGCAACTTAC
GGCAAGCCTGTCCATCATGGTGTTAACCAGCTAAAGTTTGCTCGAAGCCTTCAGTCCGTTGCAGAGGAGCAAGCTGGATG
CCACTGTGGGGCTCTT

ORF - retro_pabe_1201 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.5 %
Parental protein coverage: 54.9 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGAYKYIQELWRKKQSDVMRFLLRVRCWQYRQLSALHRAPRPTRPDKARRLGYKAKQGYVIYRIRVRRGGR
G....IQELWRKKQSDV.RFLLRVRCWQYRQLSALH.AP.PT.PDKA.RLGYKAKQGY.I.RIRVRRGGR
RetrocopyGKPRCIQELWRKKQSDVTRFLLRVRCWQYRQLSALHSAPCPTWPDKAHRLGYKAKQGYIICRIRVRRGGR
ParentalKRPVPKGATYGKPVHHGVNQLKFARSLQSVAEERAGRHCGAL
K.PVPKGATYGKPVHHGVNQLKFARSLQSVAEE.AG.HCGAL
RetrocopyKHPVPKGATYGKPVHHGVNQLKFARSLQSVAEEQAGCHCGAL

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 .06 RPM 280 .66 RPM
SRP007412_cerebellum 0 .00 RPM 291 .84 RPM
SRP007412_heart 0 .03 RPM 125 .17 RPM
SRP007412_kidney 0 .00 RPM 300 .97 RPM
SRP007412_liver 0 .00 RPM 241 .14 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_1201 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_1201 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_1201 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Pan troglodytes retro_ptro_991

Parental genes homology:
Parental genes homology involve 10 parental genes, and 84 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000034976 retrocopies
Callithrix jacchus ENSCJAG0000000381023 retrocopies
Equus caballus ENSECAG000000101571 retrocopy
Loxodonta africana ENSLAFG000000041551 retrocopy
Procavia capensis ENSPCAG000000119951 retrocopy
Pongo abelii ENSPPYG00000014065 18 retrocopies
Pan troglodytes ENSPTRG0000001469514 retrocopies
Pteropus vampyrus ENSPVAG0000000177113 retrocopies
Tursiops truncatus ENSTTRG000000072445 retrocopies
Vicugna pacos ENSVPAG000000085732 retrocopies



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