RetrogeneDB ID:

retro_pabe_1865

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:21_random:528368..528606(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL37
Ensembl ID:ENSPPYG00000015422
Aliases:None
Description:ribosomal protein L37 [Source:HGNC Symbol;Acc:10347]


Retrocopy-Parental alignment summary:






>retro_pabe_1865
TTGTGCCACCACTGTGGTCTAGGATCTATCACCTGCAGAAGTGACCTGTGGCAAATGTGGCTACTCTGCCAAGCACAAGA
GAAAGTGTAACTGGAGTGCCAAGGCTAAAAGACAAAATACCACTGGGACTGGTTGAATGAGGCAGCTAAAAATTGGGTAC
AGCAGGTTCAGGCATGGATTCCACGAAGAAACAACACCTAAGCCCAAGAGAGCAGCTGCCACAGAGTCCAACTCAACT

ORF - retro_pabe_1865 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.17 %
Parental protein coverage: 82.47 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalLCRRCG-SKAYHLQK-STCGKCGYPAKRKRKYNWSAKAKRRNTTGTGRMRHLKIVYRRFRHGFREGTTPK
LC..CG.S..YHLQK..TCGKCGY.AK.KRK.NWSAKAKR.NTTGTG.MR.LKI.Y.RFRHGF.E.TTPK
RetrocopyLCHHCG<SRIYHLQK<VTCGKCGYSAKHKRKCNWSAKAKRQNTTGTG*MRQLKIGYSRFRHGFHEETTPK
ParentalPKRAAVAASSSS
PKRAA...S.S.
RetrocopyPKRAAATESNST

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 62 .42 RPM
SRP007412_cerebellum 0 .00 RPM 60 .68 RPM
SRP007412_heart 0 .00 RPM 63 .73 RPM
SRP007412_kidney 0 .00 RPM 73 .02 RPM
SRP007412_liver 0 .00 RPM 81 .68 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_1865 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_1865 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_1865 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 11 parental genes, and 117 retrocopies.

Species Parental gene accession Retrocopies number
Homo sapiens ENSG0000014559221 retrocopies
Latimeria chalumnae ENSLACG000000027871 retrocopy
Loxodonta africana ENSLAFG0000003005213 retrocopies
Myotis lucifugus ENSMLUG0000000156510 retrocopies
Macaca mulatta ENSMMUG000000238076 retrocopies
Monodelphis domestica ENSMODG000000203013 retrocopies
Nomascus leucogenys ENSNLEG000000165084 retrocopies
Otolemur garnettii ENSOGAG000000343007 retrocopies
Pongo abelii ENSPPYG00000015422 26 retrocopies
Pan troglodytes ENSPTRG0000001682220 retrocopies
Rattus norvegicus ENSRNOG000000125386 retrocopies



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