RetrogeneDB ID:

retro_pcap_109

Retrocopy
location
Organism:Hyrax (Procavia capensis)
Coordinates:GeneScaffold_6671:58769..59158(+)
Located in intron of:ENSPCAG00000015236
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:NDUFV2
Ensembl ID:ENSPCAG00000006284
Aliases:None
Description:NADH dehydrogenase (ubiquinone) flavoprotein 2, 24kDa [Source:HGNC Symbol;Acc:7717]


Retrocopy-Parental alignment summary:






>retro_pcap_109
TACCAGGAAGGGCATAAAGCAGCAGTTGGGTTTCCAGTGCTGGATTTAACGTGGAGACAGAATGGATGGTTGCCCATCTC
TGCCATTAACAAAGTTACAGAAGTTTTACTAGTACCCCCAACGACAGCATAAGAAATAACAACTTTTTATACAGTGTATA
ATGGAAAGCCAGTTGGAAAGAATCACCTTCAGGTCTGCACTACCACACCTGTGTGCTTTAAGATTCTGACAGCATCCTGG
AGGCCATACAGAGGAAGCTTGGAATAAAGGTTGACGAGACTATACCTGACACACTTTTCCGTATAGAGATGACATGTTTA
AGTCCCTGTGTGGACGTACCAGTGGTGCACATAAATGACAGCTTCTAAGAAGATGTGACAGCTAAGGAT

ORF - retro_pcap_109 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.94 %
Parental protein coverage: 56.71 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalYPEGHKAAAVLPVLDLAQRQNGWLPISAMNKVAEVLQVPPMRVYEVATFYTMYNRKPVGKYHIQVCTTTP
Y.EGHKAA...PVLDL..RQNGWLPISA.NKV.EVL.VPP....E..TFYT.YN.KPVGK.H.QVCTTTP
RetrocopyYQEGHKAAVGFPVLDLTWRQNGWLPISAINKVTEVLLVPPTTA*EITTFYTVYNGKPVGKNHLQVCTTTP
Parental-CMLRNSDSILEAIQRKLGIKVGETTPDKLFTLIEVECLGACVNAPMVQINDNYYEDLTTKD
.C.L..SDSILEAIQRKLGIKV.ET.PD.LF..IE..CL..CV..P.V.IND...ED.T.KD
Retrocopy<CVL*DSDSILEAIQRKLGIKVDETIPDTLFR-IEMTCLSPCVDVPVVHINDSF*EDVTAKD

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_109 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 21 parental genes, and 46 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000074151 retrocopy
Bos taurus ENSBTAG000000048712 retrocopies
Choloepus hoffmanni ENSCHOG000000137141 retrocopy
Cavia porcellus ENSCPOG000000084794 retrocopies
Dasypus novemcinctus ENSDNOG000000170361 retrocopy
Dipodomys ordii ENSDORG000000081795 retrocopies
Erinaceus europaeus ENSEEUG000000068181 retrocopy
Homo sapiens ENSG000001781271 retrocopy
Loxodonta africana ENSLAFG000000105202 retrocopies
Macaca mulatta ENSMMUG000000220951 retrocopy
Mustela putorius furoENSMPUG000000047102 retrocopies
Oryctolagus cuniculus ENSOCUG000000098993 retrocopies
Otolemur garnettii ENSOGAG000000101182 retrocopies
Ochotona princeps ENSOPRG000000127882 retrocopies
Procavia capensis ENSPCAG00000006284 2 retrocopies
retro_pcap_109 , retro_pcap_405,
Rattus norvegicus ENSRNOG000000425031 retrocopy
Sorex araneus ENSSARG000000118762 retrocopies
Sus scrofa ENSSSCG000000036831 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000162591 retrocopy
Tupaia belangeri ENSTBEG000000154268 retrocopies
Tursiops truncatus ENSTTRG000000024263 retrocopies



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