RetrogeneDB ID:

retro_pcap_385

Retrocopy
location
Organism:Hyrax (Procavia capensis)
Coordinates:scaffold_62956:16168..16442(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MGST3
Ensembl ID:ENSPCAG00000015774
Aliases:None
Description:microsomal glutathione S-transferase 3 [Source:HGNC Symbol;Acc:7064]


Retrocopy-Parental alignment summary:






>retro_pcap_385
GTGACTGTCCTCTCTAAGGAATATGGCTTCATGGTTCCAACTGGTGCCGCCAGCTTCATAAGGATAACTCATTTAGCCAT
CCATGTTGCCAAAGCCAGCGAGAAACACAACGCGGAGCATCCTGTCATGAGTTCCATGGACCCAGAAAATGGGCACTTCT
TCAGCTGCACTCAGTGAGCCCACAGAAGATGTTGGAAGTATGTTCTCCCTCTGATTTTTTCTAACTGTAGGAGGTGTTTA
TCACCTGTGTATAGTTTCTGGTTTGGGGGTGGCT

ORF - retro_pcap_385 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 57.45 %
Parental protein coverage: 59.48 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMTVLSKEYGFVLLTGAASFIMVTHLAVNVS-ARKRYKVEYPTMYSTDPEHGHLFNCIQRAH-QNTLEVYP
.TVLSKEYGF...TGAASFI..THLA..V..A......E.P.M.S.DPE.GH.F.C.Q.AH.Q..LEV..
RetrocopyVTVLSKEYGFMVPTGAASFIRITHLAIHVAKASEKHNAEHPVMSSMDPENGHFFSCTQ*AH<QKMLEVCS
ParentalP-FLFFLAIGGVYHPRTASGLGLA
P...FFL..GGVYH....SGLG.A
RetrocopyP<L*FFLTVGGVYHLCIVSGLGVA

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






Procavia capensis was not studied using RNA-Seq expression data.
Procavia capensis was not studied using ChIP-Seq data.
Procavia capensis was not studied using EST data.
Procavia capensis was not studied using FANTOM5 data.
retro_pcap_385 was not experimentally validated.

Retrocopy orthology:
Procavia capensis 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 10 parental genes, and 15 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000066581 retrocopy
Canis familiaris ENSCAFG000000133531 retrocopy
Choloepus hoffmanni ENSCHOG000000127232 retrocopies
Echinops telfairi ENSETEG000000035073 retrocopies
Mustela putorius furoENSMPUG000000038171 retrocopy
Mus musculus ENSMUSG000000266881 retrocopy
Oryctolagus cuniculus ENSOCUG000000103761 retrocopy
Procavia capensis ENSPCAG00000015774 2 retrocopies
retro_pcap_385 , retro_pcap_393,
Rattus norvegicus ENSRNOG000000042451 retrocopy
Tupaia belangeri ENSTBEG000000052992 retrocopies



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