RetrogeneDB ID:

retro_ptro_886

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:13:100402077..100402689(-)
Located in intron of:ENSPTRG00000006001
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL15
Ensembl ID:ENSPTRG00000014695
Aliases:None
Description:ribosomal protein L15 [Source:HGNC Symbol;Acc:10306]


Retrocopy-Parental alignment summary:






>retro_ptro_886
ATGGGTGCATACGAGTACATCCAGGAGCTACGGAGAAAGCAGCAGTCTGATGTCATGCGCTTTCTTCTGAGGGTCCGCTG
CTGGCAGTACCGCCAGCTCTCTGCTCTCCACAGGGCTCCCCGCCCCACCCAGCCTGATAAAGCGCGCTGACTGGGCTGCG
AGGCCAAGCAAGGTTACGTTAGATATAGGATTCATGTTTGCTGTGGTGGCCGAAAACGCCCAGTTCCTAAGGGTGCAACT
TATGGCAAGCCTGTCCATCATGGTGTTAACCAGCTAAAGTTTGCTCCAAGCCTTCAGTCCGTTGCAGAGGAGCAAGCTGG
ACGCCACTGTGGGGCTTTGAGAGTCCTGAATTCTTACTGGGTTGGTGAAGATTCCACATACAAATTTTTTGAGGTTATCC
TCACTGATCCATTCCATAAAGCTATCAGAAGAAATCCTGACACCTAATGGATCACCAAATCAGTCCACAGCACAGGGAGA
TGTGTGGGCTGACATCTGCAGGCCAAAAGAGCCCTGGCCCTTGGAAACGGCCATAAGTTCCACCACACTATTGGTGGTTC
TCGCCGGGCAGCTTGGAGAAGGCGCAATACTCTCCCGCTCCACCGTTACCGC

ORF - retro_ptro_886 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.35 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMGAYKYIQELWRKKQSDVMRFLLRVRCWQYRQLSALHRAPRPTRPDKARRLGYKAKQGYVIYRIRVRRGG
MGAY.YIQEL.RK.QSDVMRFLLRVRCWQYRQLSALHRAPRPT.PDKAR.LG..AKQGYV.YRI.V..GG
RetrocopyMGAYEYIQELRRKQQSDVMRFLLRVRCWQYRQLSALHRAPRPTQPDKAR*LGCEAKQGYVRYRIHVCCGG
ParentalRKRPVPKGATYGKPVHHGVNQLKFARSLQSVAEERAGRHCGALRVLNSYWVGEDSTYKFFEVILIDPFHK
RKRPVPKGATYGKPVHHGVNQLKFA.SLQSVAEE.AGRHCGALRVLNSYWVGEDSTYKFFEVIL.DPFHK
RetrocopyRKRPVPKGATYGKPVHHGVNQLKFAPSLQSVAEEQAGRHCGALRVLNSYWVGEDSTYKFFEVILTDPFHK
ParentalAIRRNPDTQWITKPVH-KHREMRGLTSAGRKSRG-LGKGHKFHHTIGGSRRAAWRRRNTLQLHRYR
AIRRNPDT.WITK.VH..HREM.GLTSAG.KS.G.LG.GHKFHHTIGGSRRAAWRRRNTL.LHRYR
RetrocopyAIRRNPDT*WITKSVH<QHREMCGLTSAGQKSPG>LGNGHKFHHTIGGSRRAAWRRRNTLPLHRYR

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 .07 RPM 384 .18 RPM
SRP007412_cerebellum 0 .11 RPM 392 .25 RPM
SRP007412_heart 0 .03 RPM 133 .81 RPM
SRP007412_kidney 0 .08 RPM 397 .82 RPM
SRP007412_liver 0 .03 RPM 190 .71 RPM
SRP007412_testis 0 .11 RPM 185 .79 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_886 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_886 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_886 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_1294

Parental genes homology:
Parental genes homology involve 9 parental genes, and 83 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000034976 retrocopies
Callithrix jacchus ENSCJAG0000000381023 retrocopies
Equus caballus ENSECAG000000101571 retrocopy
Procavia capensis ENSPCAG000000119951 retrocopy
Pongo abelii ENSPPYG0000001406518 retrocopies
Pan troglodytes ENSPTRG00000014695 14 retrocopies
Pteropus vampyrus ENSPVAG0000000177113 retrocopies
Tursiops truncatus ENSTTRG000000072445 retrocopies
Vicugna pacos ENSVPAG000000085732 retrocopies



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