RetrogeneDB ID:

retro_pabe_1713

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:1_random:12552800..12553112(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSPPYG00000003223
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_pabe_1713
ATGAAGACGTTTCTGGGGTTAAATGGATCCTTTCTTCTCCGTTTCTTGATATGGACCTGTGCTGGGGATTGGTCAGCTGT
TCAAGTGCAATGCCCTCAGTTTTGGTTCTGTGCCAGGATTAAACCTACGATATTTCACATTTCATATATAAACCCCAATG
AAGTGTTTCTAGGAGATGGCTACCCCATAACCTATGTTTTGCCAAATGTTTACTATGAGTTTCACCACCATCCTCTTGAA
CATGGTATTGTAACTAAAACTCTTCAGGAAATTCTACTTAAAACCAAAATCACGTATATCTCAAGAAACTCC

ORF - retro_pabe_1713 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.52 %
Parental protein coverage: 88.98 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMKTVLGFKGLFYLHSLIWTCAGDWSAIQVHCTQFWFFARIKPTIFYNLYVNPDEVFLGDGCCVTHVLPNV
MKT.LG..G.F.L..LIWTCAGDWSA.QV.C.QFWF.ARIKPTIF...Y.NP.EVFLGDG...T.VLPNV
RetrocopyMKTFLGLNGSFLLRFLIWTCAGDWSAVQVQCPQFWFCARIKPTIFHISYINPNEVFLGDGYPITYVLPNV
ParentalYYEFFYHPHDCGIVTQPLQEVLLLKTKIKHISRDS
YYEF..HP...GIVT..LQE..LLKTKI..ISR.S
RetrocopyYYEFHHHPLEHGIVTKTLQEI-LLKTKITYISRNS

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 0 .17 RPM
SRP007412_cerebellum 0 .00 RPM 0 .00 RPM
SRP007412_heart 0 .00 RPM 0 .00 RPM
SRP007412_kidney 0 .00 RPM 0 .00 RPM
SRP007412_liver 0 .00 RPM 0 .00 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_1713 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_1713 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_1713 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 6 parental genes, and 50 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000273481 retrocopy
Homo sapiens ENSG000002147882 retrocopies
Gorilla gorilla ENSGGOG000000167926 retrocopies
Nomascus leucogenys ENSNLEG000000131943 retrocopies
Pongo abelii ENSPPYG00000003223 20 retrocopies
Pan troglodytes ENSPTRG0000003450618 retrocopies



Copyright © RetrogeneDB 2014-2017