RetrogeneDB ID:

retro_pabe_1765

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:1_random:22554275..22554647(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HNRNPA1L2
Ensembl ID:ENSPPYG00000025850
Aliases:None
Description:heterogeneous nuclear ribonucleoprotein A1-like 2 [Source:HGNC Symbol;Acc:27067]


Retrocopy-Parental alignment summary:






>retro_pabe_1765
AATGATGGTGGTTATGGAGTAGGTGGCCCTGGTTACTCTGGAGGAAGCAGAGGCTATGGAAGTGTTGGAAAGGGTTATGG
AAGCCAGGGCAGTGGCTATGTTGGGAGTGGCAGCTATAACAGCTATAACAATGGAGGTGGAGGCAGCTTTGGTGGTGGTA
GTGGAAGCAATTTTGGAGGCAGTGGGAGCTACAATGATTTTGGCAATTACAACAATCAGTCTTCAAATTTTGGACCCACG
AAGGGAGGAAACTTTGGAGGCAGAAGTTCTGGCCCCTATGGTGGTGGAGGCCAATACTTTGTCAAACCACAAAACCTAAG
TGGCTATGGCAGTTCCAGTAGCAGCAGTAGCTATGGCAGTGGCAGAAGATTT

ORF - retro_pabe_1765 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.26 %
Parental protein coverage: 63.59 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalNARGYGGGGPGYSGGSRGYGSGGQGYGNQGSGYGGSGSYDSYNNGGGGCFGGGSGSNFGGGGSYNDFGNY
N..GYG.GGPGYSGGSRGYGS.G.GYG.QGSGY.GS........GGGG.FGGGSGSNFGG.GSYNDFGNY
RetrocopyNDGGYGVGGPGYSGGSRGYGSVGKGYGSQGSGYVGSXXXXXXXXGGGGSFGGGSGSNFGGSGSYNDFGNY
ParentalNNQSSNFGPMKGGNFGGRSSGPYGGGGQYFAKPRNQGGYGSSSSSSSYGSGRRF
NNQSSNFGP.KGGNFGGRSSGPYGGGGQYF.KP.N..GYGSSSSSSSYGSGRRF
RetrocopyNNQSSNFGPTKGGNFGGRSSGPYGGGGQYFVKPQNLSGYGSSSSSSSYGSGRRF

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 57 .06 RPM
SRP007412_cerebellum 0 .00 RPM 45 .97 RPM
SRP007412_heart 0 .06 RPM 44 .37 RPM
SRP007412_kidney 0 .07 RPM 78 .09 RPM
SRP007412_liver 0 .00 RPM 46 .97 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_1765 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_1765 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_1765 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 10 parental genes, and 28 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG000000092287 retrocopies
Loxodonta africana ENSLAFG000000295875 retrocopies
Mustela putorius furoENSMPUG000000046201 retrocopy
Mustela putorius furoENSMPUG000000057352 retrocopies
Oryctolagus cuniculus ENSOCUG000000133501 retrocopy
Oreochromis niloticus ENSONIG000000122481 retrocopy
Procavia capensis ENSPCAG000000018675 retrocopies
Pongo abelii ENSPPYG000000129671 retrocopy
Pongo abelii ENSPPYG000000161071 retrocopy
Pongo abelii ENSPPYG00000025850 4 retrocopies



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