RetrogeneDB ID:

retro_dord_600

Retrocopy
location
Organism:Kangaroo rat (Dipodomys ordii)
Coordinates:scaffold_38848:7767..8160(-)
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:ENSDORG00000000964
Aliases:None
Description:prostaglandin E synthase 3 (cytosolic) [Source:MGI Symbol;Acc:MGI:1929282]


Retrocopy-Parental alignment summary:






>retro_dord_600
CAGCCTACTTTGGCAAAATGGTTCGCTCCAACGTACTACGTCCTCATGGCAGTGTGTGTTGAAGGCAGTAGAGATGATAA
TACAAATGTCGAAAAATCCAGACATACTTTTGACTGTCCTTGAAGAAGGGACAATTTTAAACATTTAAACGAAATCGATC
TTTTCTACCATATCGACCCAAAATGACGCCAAGCATAAAAGAAAGGACAGGTCAATTTTATGTTGTTTACGAAAAGGAGA
ATCTGGCCAATCATGGCGTAGCTTAACACAAGAAAGGGCAAAGTTTAATTGGCTCGGTGAGGATTTCAATCACTAATGAG
GCAGAGAAGATGACTCAGATGAAGATAGTCTACTTTTGATGGTTTCTCTGAGATGATGAACCACATGGGTGGG

ORF - retro_dord_600 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 66.92 %
Parental protein coverage: 87.33 %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalQPASAKWYDRRDYVFIEFCVEDSKDVNVNFEKSKLTFSCLGGSDNFKHLNEIDLFHCIDP-NDSKHKRTD
QP..AKW.....YV....CVE.S.D.N.N.EKS..TF.C....DNFKHLNEIDLF..IDP.ND.KHKR.D
RetrocopyQPTLAKWFAPTYYVLMAVCVEGSRDDNTNVEKSRHTFDCP*RRDNFKHLNEIDLFYHIDP>NDAKHKRKD
ParentalRSILCCLRKGESGQSWPRLTKERAKLNWLSVDFNNWKDWEDDSDEDM-SNFDRFSEMMNNMGG
RSILCCLRKGESGQSW..LT.ERAK.NWL..DFN.....EDDSDED..S.FD.FSEMMN.MGG
RetrocopyRSILCCLRKGESGQSWRSLTQERAKFNWLGEDFNH**GREDDSDEDS<STFDGFSEMMNHMGG

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






Dipodomys ordii was not studied using RNA-Seq expression data.
Dipodomys ordii was not studied using ChIP-Seq data.
Dipodomys ordii was not studied using EST data.
Dipodomys ordii was not studied using FANTOM5 data.
retro_dord_600 was not experimentally validated.

Retrocopy orthology:
Dipodomys ordii 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 24 parental genes, and 86 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 ENSDORG00000000964 2 retrocopies
retro_dord_600 , retro_dord_94,
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 ENSPTRG000000051088 retrocopies
Rattus norvegicus ENSRNOG000000026425 retrocopies
Sorex araneus ENSSARG000000077512 retrocopies
Tupaia belangeri ENSTBEG0000000299415 retrocopies
Tarsius syrichta ENSTSYG000000096222 retrocopies



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