RetrogeneDB ID:

retro_ptro_454

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:10:107623629..107623871(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PTGES3
Ensembl ID:ENSPTRG00000005108
Aliases:None
Description:Pan troglodytes prostaglandin E synthase 3 (cytosolic) (PTGES3), mRNA. [Source:RefSeq mRNA;Acc:NM_001246402]


Retrocopy-Parental alignment summary:






>retro_ptro_454
AGGCCCTCTGCCATTGCTGAATTTTGTGTTGAACACAGAAATGATGTTAATATACATTTTGAAAAATCCGAAGTTGCATT
TTTCTTGGAGAAAGTTAATCATTGTAAACATTTAAATGAAATTATCTTTTTCATTGGGTAGATCCAAGTGTTTCCAAGCA
TAAAAGAACAGATGGGTCAACACTATGTTTGTGAAAAGGGGAATCTGGGCAGTCATGGCCAAGGTTAACAAAAGAGCAAA
GC

ORF - retro_ptro_454 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60.71 %
Parental protein coverage: 51.88 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalRDYVFIEFCVEDSKDVNVNFEKSKLTFSCLGGSDNFKHLNEID-LFHCIDPNDSKHKRTDRSILCCLRKG
R.....EFCVE...DVN..FEKS...F..L......KHLNEI..LFH..DP..SKHKRTD.S.LC.L.KG
RetrocopyRPSAIAEFCVEHRNDVNIHFEKSEVAFF-LEKVNHCKHLNEII<LFHWVDPSVSKHKRTDGSTLC-L*KG
ParentalESGQSWPRLTKERA
ESGQSWPRLTKE..
RetrocopyESGQSWPRLTKEQS

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 63 .33 RPM
SRP007412_cerebellum 0 .00 RPM 20 .86 RPM
SRP007412_heart 0 .00 RPM 21 .66 RPM
SRP007412_kidney 0 .00 RPM 37 .19 RPM
SRP007412_liver 0 .00 RPM 18 .53 RPM
SRP007412_testis 0 .00 RPM 60 .60 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_454 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_454 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_454 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_623

Parental genes homology:
Parental genes homology involve 25 parental genes, and 87 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000041721 retrocopy
Bos taurus ENSBTAG000000179672 retrocopies
Choloepus hoffmanni ENSCHOG000000065141 retrocopy
Callithrix jacchus ENSCJAG000000107246 retrocopies
Cavia porcellus ENSCPOG000000000572 retrocopies
Dasypus novemcinctus ENSDNOG000000113104 retrocopies
Dipodomys ordii ENSDORG000000009642 retrocopies
Echinops telfairi ENSETEG000000000241 retrocopy
Homo sapiens ENSG000001109585 retrocopies
Gorilla gorilla ENSGGOG000000279575 retrocopies
Loxodonta africana ENSLAFG000000082681 retrocopy
Macropus eugenii ENSMEUG000000012881 retrocopy
Myotis lucifugus ENSMLUG000000159273 retrocopies
Macaca mulatta ENSMMUG000000137666 retrocopies
Mus musculus ENSMUSG000000710722 retrocopies
Nomascus leucogenys ENSNLEG000000174543 retrocopies
Otolemur garnettii ENSOGAG000000286673 retrocopies
Procavia capensis ENSPCAG000000077792 retrocopies
Pongo abelii ENSPPYG000000046694 retrocopies
Pan troglodytes ENSPTRG00000005108 8 retrocopies
Pan troglodytes ENSPTRG000000092301 retrocopy
Rattus norvegicus ENSRNOG000000026425 retrocopies
Sorex araneus ENSSARG000000077512 retrocopies
Tupaia belangeri ENSTBEG0000000299415 retrocopies
Tarsius syrichta ENSTSYG000000096222 retrocopies



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