RetrogeneDB ID:

retro_psin_52

Retrocopy
location
Organism:Chinese softshell turtle (Pelodiscus sinensis)
Coordinates:JH209112.1:9311136..9311397(+)
Located in intron of:ENSPSIG00000017102
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS12
Ensembl ID:ENSPSIG00000003457
Aliases:None
Description:ribosomal protein S12 [Source:HGNC Symbol;Acc:10385]


Retrocopy-Parental alignment summary:






>retro_psin_52
GCTGAGGAAGGCATTACTGCTGGAGGTGTAATGGATGTTAACACCGCCCTGCAAGAAGTGCTGAAGACCGCACTCATCCA
CGATGGCTTAGCTCGTGGTATTCGTGAAGCTGCCAAAGCCTTGGACAAACGCCAAGCCCACCTTTGTGTTCTTGCTTCAA
ACTGTGACGAACCAATGTATGTAAAATTGGTTGAAGCCCTTTGTGCAGAACACCAGATCAACTTGATAAAAGTTGATGAC
AACAAGAAACTGGGTTAGTGG

ORF - retro_psin_52 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 95.4 %
Parental protein coverage: 65.91 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalALDNITAGGVMDVNTALQEVLKTALIHDGLARGIREAAKALDKRQAHLCVLASNCDEPMYVKLVEALCAE
A...ITAGGVMDVNTALQEVLKTALIHDGLARGIREAAKALDKRQAHLCVLASNCDEPMYVKLVEALCAE
RetrocopyAEEGITAGGVMDVNTALQEVLKTALIHDGLARGIREAAKALDKRQAHLCVLASNCDEPMYVKLVEALCAE
ParentalHQINLIKVDDNKKLGEW
HQINLIKVDDNKKLG.W
RetrocopyHQINLIKVDDNKKLG*W

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Pelodiscus sinensis was not studied using RNA-Seq expression data.
Pelodiscus sinensis was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_psin_52 retrocopy.
Pelodiscus sinensis was not studied using FANTOM5 data.
retro_psin_52 was not experimentally validated.

Retrocopy orthology:
Pelodiscus sinensis does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 36 parental genes, and 363 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000104791 retrocopy
Ailuropoda melanoleuca ENSAMEG000000080152 retrocopies
Bos taurus ENSBTAG000000013607 retrocopies
Canis familiaris ENSCAFG0000000019015 retrocopies
Callithrix jacchus ENSCJAG0000000286534 retrocopies
Cavia porcellus ENSCPOG000000004294 retrocopies
Dasypus novemcinctus ENSDNOG0000000621431 retrocopies
Equus caballus ENSECAG000000015998 retrocopies
Echinops telfairi ENSETEG0000000685414 retrocopies
Felis catus ENSFCAG000000284027 retrocopies
Homo sapiens ENSG0000011230626 retrocopies
Gorilla gorilla ENSGGOG0000001223422 retrocopies
Gadus morhua ENSGMOG000000194551 retrocopy
Loxodonta africana ENSLAFG0000000793311 retrocopies
Macropus eugenii ENSMEUG000000042851 retrocopy
Microcebus murinus ENSMICG000000052525 retrocopies
Myotis lucifugus ENSMLUG000000011375 retrocopies
Macaca mulatta ENSMMUG000000132371 retrocopy
Monodelphis domestica ENSMODG000000175201 retrocopy
Mustela putorius furoENSMPUG000000147711 retrocopy
Mus musculus ENSMUSG000000619831 retrocopy
Nomascus leucogenys ENSNLEG000000146114 retrocopies
Oryctolagus cuniculus ENSOCUG0000000160614 retrocopies
Otolemur garnettii ENSOGAG0000000130920 retrocopies
Pongo abelii ENSPPYG0000001702026 retrocopies
Pelodiscus sinensis ENSPSIG00000003457 1 retrocopy
retro_psin_52 ,
Pan troglodytes ENSPTRG0000001861825 retrocopies
Pteropus vampyrus ENSPVAG0000001720112 retrocopies
Rattus norvegicus ENSRNOG000000164115 retrocopies
Sorex araneus ENSSARG000000031702 retrocopies
Sarcophilus harrisii ENSSHAG000000089056 retrocopies
Sus scrofa ENSSSCG000000041778 retrocopies
Tarsius syrichta ENSTSYG0000001009724 retrocopies
Tursiops truncatus ENSTTRG0000000060911 retrocopies
Vicugna pacos ENSVPAG000000100824 retrocopies
Vicugna pacos ENSVPAG000000115043 retrocopies



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