RetrogeneDB ID:

retro_pabe_1424

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:16_random:10054695..10055056(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RARRES2
Ensembl ID:ENSPPYG00000018166
Aliases:None
Description:Retinoic acid receptor responder protein 2 [Source:UniProtKB/Swiss-Prot;Acc:Q5R551]


Retrocopy-Parental alignment summary:






>retro_pabe_1424
TACCCGCCCATGCAGTGGCCTTCCGGGAGACCAGTATGGACGGCACCGTGGACACGCCCTTCCCAGCTGGAACATTCGTG
AGGCTGGAATTTAAGCTGGGGCAGAAAAGCGGCAGGAAGGACTGGAAGAAACCCGAGCGCAAAGTCCAGCCCAAGGGGAG
GAAGCGGAAATGCCTGGCCTGCGTCAAACTGGGTTCTGAGGAGAAGGTTCCGGCCCTGATGGTAACTACCCTATAGAGAC
GCCGGTTTGGCGGGAACCTGAGGAGCACCAGGGACCCAGTACAGCCGGGCGGAGTGGGCGGTGAGGACCCCACAGCTACT
GCTTCCCTGTACAGTTCGTCTTCTCCAAGGCCGGGCCCCAG

ORF - retro_pabe_1424 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 67.19 %
Parental protein coverage: 75.46 %
Number of stop codons detected: 0
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalHPPVQW-AFQETSVESAVDTPFPAGIFVRLEFKLQQTSCRKRDWKKPECKVRPNGRKRKCLACIKLGSED
.PP.QW.AF.ETS....VDTPFPAG.FVRLEFKL.Q.S.RK.DWKKPE.KV.P.GRKRKCLAC.KLGSE.
RetrocopyYPPMQW<AFRETSMDGTVDTPFPAGTFVRLEFKLGQKSGRK-DWKKPERKVQPKGRKRKCLACVKLGSEE
ParentalKVLGRLV-HCPIETQVLREPEEHQ-ETQCIRVQRA-GED-PHSFYFPGQFAFSKALPR
KV....V...PIET.V.REPEEHQ..TQ..R...A.GED.PHS..FP.QF.FSKA.P.
RetrocopyKVPALMV<NYPIETPVWREPEEHQ<GTQYSRAEWA<GED<PHSYCFPVQFVFSKAGPQ

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 16 .81 RPM
SRP007412_cerebellum 0 .00 RPM 8 .03 RPM
SRP007412_heart 0 .00 RPM 7 .53 RPM
SRP007412_kidney 0 .00 RPM 181 .38 RPM
SRP007412_liver 0 .00 RPM 384 .91 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_1424 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_1424 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_1424 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 7 parental genes, and 79 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000103225 retrocopies
Homo sapiens ENSG0000010653813 retrocopies
Gorilla gorilla ENSGGOG000000111581 retrocopy
Macaca mulatta ENSMMUG000000052324 retrocopies
Nomascus leucogenys ENSNLEG0000000136218 retrocopies
Pongo abelii ENSPPYG00000018166 28 retrocopies
Pan troglodytes ENSPTRG0000001985410 retrocopies



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