RetrogeneDB ID:

retro_pabe_3049

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:7:22804836..22805332(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:BNIP3
Ensembl ID:ENSPPYG00000002771
Aliases:None
Description:BCL2/adenovirus E1B 19kDa interacting protein 3 [Source:HGNC Symbol;Acc:1084]


Retrocopy-Parental alignment summary:






>retro_pabe_3049
CAGAGAATGAAGCCTGAGCTGCAGGAGGAGAGCCTGCAGGCCTCCTGGGTAGAACTGCACCTTCACAATAATGGAAATGG
GTGCAGTGTTTAAGCCTCAGTTTTTTATTTATAATGGTGACATGGAAATCACTCTGCTGGATTTCCAGCATGAGTCCATA
TAGAGATGGCTCCAAGAGTTCTCACTGTGACAGCCCACCTCATTCACAGACACCATGGGATAGTAACAGGGCTTCCAAAA
CAGACACCCAATGCATTCAAGAGAAAAACAGCTCACTCTGAAAATGATTATATTGAGAGAAAAAAAAAAGAAGATAAAAG
CATCTTAAGAAAAAAGCTCAGATTAGATATGATTGAACAAGTCAGCCAGAAAATATTCCCCTAAAACACATTTCTCTGTA
AAAACCCAAAGTGCACAGCTACCCTCAGTATGAAAAACATGAGCATTATGAATAATGGGGGGCATATTCTCAGCAGAATT
TTGTAAGTGTGTGTTA

ORF - retro_pabe_3049 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 62.35 %
Parental protein coverage: 62.89 %
Number of stop codons detected: 2
Number of frameshifts detected 6


Retrocopy - Parental Gene Alignment:

ParentalQNGAPGMQEESLQGSWVELHFSNNGNGSSVPASV-SIYNGDMEKILLDAQHES-GRSSSKSSHCDSPPRS
Q...P..QEESLQ.SWVELH..NNGNG.SV.ASV..IYNGDME..LLD.QHES..R..SKSSHCDSPP.S
RetrocopyQRMKPELQEESLQASWVELHLHNNGNGCSV*ASV>FIYNGDMEITLLDFQHES>YRDGSKSSHCDSPPHS
ParentalQT--DTNRASETDTHSIGENSS-QSEEDDIE-RRKEVESI-LKKNSDWIWDWSSRPENIPPKE-FLFKHP
QT..D.NRAS.TDT..I.E..S..SE.D.IE....E..SI.LKK......D..S.PENIP.K..FL.K.P
RetrocopyQTPWDSNRASKTDTQCIQEKNS>HSENDYIEXXXXEDKSI<LKKKAQIRYD*TSQPENIPLKH>FLCKNP
ParentalKRTATLSMRNTSVMKK-GGIFSAEFLKVFL
K.TATLSM.N.S.M...GGIFSAEF.K..L
RetrocopyKCTATLSMKNMSIMNN>GGIFSAEFCKCVL

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 63 .25 RPM
SRP007412_cerebellum 0 .00 RPM 53 .50 RPM
SRP007412_heart 0 .03 RPM 45 .73 RPM
SRP007412_kidney 0 .03 RPM 35 .00 RPM
SRP007412_liver 0 .03 RPM 31 .00 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_3049 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_3049 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_3049 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 19 parental genes, and 146 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000021502 retrocopies
Callithrix jacchus ENSCJAG000000002288 retrocopies
Cavia porcellus ENSCPOG000000058827 retrocopies
Dipodomys ordii ENSDORG000000125111 retrocopy
Equus caballus ENSECAG000000174583 retrocopies
Echinops telfairi ENSETEG000000117041 retrocopy
Homo sapiens ENSG0000017617121 retrocopies
Gorilla gorilla ENSGGOG0000001452017 retrocopies
Microcebus murinus ENSMICG000000119851 retrocopy
Macaca mulatta ENSMMUG0000002244513 retrocopies
Mus musculus ENSMUSG000000785664 retrocopies
Nomascus leucogenys ENSNLEG0000000161326 retrocopies
Pongo abelii ENSPPYG00000002771 18 retrocopies
Pan troglodytes ENSPTRG0000000306717 retrocopies
Rattus norvegicus ENSRNOG000000172433 retrocopies
Sus scrofa ENSSSCG000000243881 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000124561 retrocopy
Tupaia belangeri ENSTBEG000000004871 retrocopy
Tursiops truncatus ENSTTRG000000080381 retrocopy



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