RetrogeneDB ID:

retro_pabe_928

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:12:55620647..55621271(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:OLA1
Ensembl ID:ENSPPYG00000012943
Aliases:None
Description:obg-like ATPase 1 [Source:RefSeq peptide;Acc:NP_001127505]


Retrocopy-Parental alignment summary:






>retro_pabe_928
ATACAATTTGCAGTTAAATCCTGGGTTATAGATCAAAGGAAAAATCATTGTTTCTATCGTGATTGGGACAAAGAGATTGT
ATTTTTAAATATTTATTTTTTACTTCTAAACCAGTGGTGTACTTGATTAATCTTTATGAAAAAGTCTGCATTAGAAAGAA
AAATGAATGTTTGATAAAAATAAAGAGTTGGTGGACAAGTGTGACTCCGGTGTATTGGTCATTACTTTGAGTGGGGCCTT
GGAACACATGTTGCAAGAACTGAGTACTGAGAGAGACAGTATCTGAAAGTGAACATGACACAGAGTACTTTGCTAAAGTT
CATTAAGGCTGGTTTTGCAGTACTCCTACTAGAACACTTTTTCACTGCAGTCCCAGATGAAGTACATACGTAGACCATCT
GCAAAGAGACGGAGGCTCCTCAGGCCGTGGAACAGATTCAAACAGATTTTGAAAAGGAATTCAGTATGGCTGACGTAATG
AAATATGAAAATTTTAAAGAGGAAGTTTCTGAAAATGCAGTGAGTCCTGCTGCAAAGTACAGACAACAAAGCAGAAATTA
TACTGTGGAAAGTGGAGATGTTGTTTTCTTCAAATTTAGTACACCTCAACAACCAAAGAAGAAA

ORF - retro_pabe_928 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.37 %
Parental protein coverage: 53.54 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalIMCKVKSWVIDQKKPVRFYHDWNDKEIEVLNKHLFL-TSKPMVYLVNLSEKDYIRKKNKWLIKIKEW-VD
I...VKSWVIDQ.K...FY.DW.DKEI..LN...FL.TSKP.VYL.NL.EK..IRKKN..LIKIK.W.VD
RetrocopyIQFAVKSWVIDQRKNHCFYRDW-DKEIVFLNIY-FL<TSKPVVYLINLYEKVCIRKKNECLIKIKSW<VD
ParentalKYDPGALVIPFSGALELKLQELSAE-ERQKYLEANMTQSALPKIIKAGFAALQLEYFFTAGPEEVRAWTI
K.D.G.LVI..SGALE..LQELS.E.ERQ.YL..NMTQS.L.K.IKAGFA.L.LE.FFTA.P.EV...TI
RetrocopyKCDSGVLVITLSGALEHMLQELSTE<ERQ-YLKVNMTQSTLLKFIKAGFAVLLLEHFFTAVPDEVHT*TI
ParentalRKGTKAPQAAGKIHTDFEKGFIMAEVMKYEDFKEEGSENAVKAAGKYRQQGRNYIVEDGDIIFFKFNTPQ
.K.T.APQA...I.TDFEK.F.MA.VMKYE.FKEE.SENAV..A.KYRQQ.RNY.VE.GD..FFKF.TPQ
RetrocopyCKETEAPQAVEQIQTDFEKEFSMADVMKYENFKEEVSENAVSPAAKYRQQSRNYTVESGDVVFFKFSTPQ
ParentalQPKKK
QPKKK
RetrocopyQPKKK

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 44 .12 RPM
SRP007412_cerebellum 0 .00 RPM 42 .80 RPM
SRP007412_heart 0 .00 RPM 20 .32 RPM
SRP007412_kidney 0 .00 RPM 32 .52 RPM
SRP007412_liver 0 .00 RPM 20 .69 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_928 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_928 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_928 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 15 parental genes, and 18 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000069701 retrocopy
Choloepus hoffmanni ENSCHOG000000050441 retrocopy
Callithrix jacchus ENSCJAG000000078771 retrocopy
Dipodomys ordii ENSDORG000000086811 retrocopy
Homo sapiens ENSG000001384301 retrocopy
Gorilla gorilla ENSGGOG000000222151 retrocopy
Myotis lucifugus ENSMLUG000000251961 retrocopy
Monodelphis domestica ENSMODG000000092961 retrocopy
Nomascus leucogenys ENSNLEG000000058171 retrocopy
Otolemur garnettii ENSOGAG000000165571 retrocopy
Pongo abelii ENSPPYG00000012943 2 retrocopies
retro_pabe_1912, retro_pabe_928 ,
Pan troglodytes ENSPTRG000000126501 retrocopy
Sorex araneus ENSSARG000000107431 retrocopy
Tarsius syrichta ENSTSYG000000055172 retrocopies
Vicugna pacos ENSVPAG000000096602 retrocopies



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