RetrogeneDB ID:

retro_pabe_1639

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:19:42311843..42312119(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL36
Ensembl ID:ENSPPYG00000009431
Aliases:None
Description:60S ribosomal protein L36 [Source:UniProtKB/Swiss-Prot;Acc:Q5RAZ9]


Retrocopy-Parental alignment summary:






>retro_pabe_1639
GGCCCCAAGGTGACCAAGGACATGAGCAAGCCCAGACACAGCTGCCACCCCGGACGTCTGACCAAACACACCAGGTTTGT
GTGGGACATGATCCGGGAGGTGTGTAGCTTTGCCCCGTACAAGCGGCAGGCCATGGAGTTGCTGAAGGTCCCCAAGGGCA
AATGGTCCCTCAAGTTCATCATGAAAAGAGTGGGGACACACATCTGCGCCAAGAGGAAGCGGAAGGAGCTGAGCAAGGTA
CTGGCCACCATGAGGAAAGCTGCTGCCAAGAAAGAC

ORF - retro_pabe_1639 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.26 %
Parental protein coverage: 87.62 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGHKVTKNVSKPRHSRRRGRLTKHTKFVRDMIREVCGFAPYERRAMELLKVSKDKRALKFIKKRVGTHIRA
G.KVTK..SKPRHS...GRLTKHT.FV.DMIREVC.FAPY.R.AMELLKV.K.K..LKFI.KRVGTHI.A
RetrocopyGPKVTKDMSKPRHSCHPGRLTKHTRFVWDMIREVCSFAPYKRQAMELLKVPKGKWSLKFIMKRVGTHICA
ParentalKRKREELSNVLAAMRKAAAKKD
KRKR.ELS.VLA.MRKAAAKKD
RetrocopyKRKRKELSKVLATMRKAAAKKD

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 32 .23 RPM
SRP007412_cerebellum 0 .00 RPM 22 .37 RPM
SRP007412_heart 0 .00 RPM 21 .13 RPM
SRP007412_kidney 0 .00 RPM 80 .91 RPM
SRP007412_liver 0 .00 RPM 81 .92 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_1639 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_1639 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_1639 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Pan troglodytes retro_ptro_1334

Parental genes homology:
Parental genes homology involve 20 parental genes, and 129 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000123496 retrocopies
Bos taurus ENSBTAG000000017943 retrocopies
Callithrix jacchus ENSCJAG000000170722 retrocopies
Cavia porcellus ENSCPOG000000228393 retrocopies
Dasypus novemcinctus ENSDNOG000000051638 retrocopies
Echinops telfairi ENSETEG0000001294315 retrocopies
Felis catus ENSFCAG000000118385 retrocopies
Homo sapiens ENSG0000013025513 retrocopies
Gorilla gorilla ENSGGOG0000001536511 retrocopies
Latimeria chalumnae ENSLACG000000151611 retrocopy
Macropus eugenii ENSMEUG000000027434 retrocopies
Monodelphis domestica ENSMODG000000012752 retrocopies
Mustela putorius furoENSMPUG000000061666 retrocopies
Mus musculus ENSMUSG000000578639 retrocopies
Otolemur garnettii ENSOGAG0000002704912 retrocopies
Pongo abelii ENSPPYG00000009431 12 retrocopies
Rattus norvegicus ENSRNOG000000334735 retrocopies
Sarcophilus harrisii ENSSHAG000000134928 retrocopies
Sus scrofa ENSSSCG000000300102 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000205182 retrocopies



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