RetrogeneDB ID:

retro_opri_1078

Retrocopy
location
Organism:Southern American pika (Ochotona princeps)
Coordinates:scaffold_6691:21255..21511(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOPRG00000008349
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:DSTN
Ensembl ID:ENSOPRG00000000976
Aliases:None
Description:destrin (actin depolymerizing factor) [Source:HGNC Symbol;Acc:15750]


Retrocopy-Parental alignment summary:






>retro_opri_1078
TGTGGCTATGCTTTGTATGACGCCAGATTTGAAACCAAGGAATCCAGAAAAGAAGAACTGATATTCCTTTTGGTGGGCAT
CAGAACCAGCACCTCTGAAAAGTGAAATGAGCTCTGCAGATTCCAAGGATGCAATCAGAAGAAATTGCAAGGGATAAAAC
CTGCATGTCAGGCCCATGCGCCAGAAGACCTCAGTCGGGCACAGTGCAGAGAAGCTGGGTGGGTCCTTAACTGCAGCTTT
TGAAGGATGCCCCGTG

ORF - retro_opri_1078 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 66.29 %
Parental protein coverage: 52.12 %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalCRYALYDASFETKESRKEELMF-FLWAPELAPLKSKMIYASSKDAIK-KKFQGIKHECQANGPEDLNRAC
C.YALYDA.FETKESRKEEL.F.F.WA.E.APLKS.M..A.SKDAI..KK.QGIK..CQA..PEDL.RA.
RetrocopyCGYALYDARFETKESRKEELIF>FWWASEPAPLKSEMSSADSKDAIR<KKLQGIKPACQAHAPEDLSRAQ
ParentalIAEKLGGSLIVAF-EGCPV
..E..G..L...F.EGCPV
RetrocopyCRE-AGWVLNCSF>EGCPV

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






Ochotona princeps was not studied using RNA-Seq expression data.
Ochotona princeps was not studied using ChIP-Seq data.
Ochotona princeps was not studied using EST data.
Ochotona princeps was not studied using FANTOM5 data.
retro_opri_1078 was not experimentally validated.

Retrocopy orthology:
Ochotona princeps 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 20 parental genes, and 33 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000154341 retrocopy
Choloepus hoffmanni ENSCHOG000000031105 retrocopies
Cavia porcellus ENSCPOG000000055732 retrocopies
Dasypus novemcinctus ENSDNOG000000009341 retrocopy
Erinaceus europaeus ENSEEUG000000118931 retrocopy
Homo sapiens ENSG000001258681 retrocopy
Gorilla gorilla ENSGGOG000000090071 retrocopy
Microcebus murinus ENSMICG000000136871 retrocopy
Macaca mulatta ENSMMUG000000137861 retrocopy
Mus musculus ENSMUSG000000159321 retrocopy
Nomascus leucogenys ENSNLEG000000096791 retrocopy
Oryctolagus cuniculus ENSOCUG000000274561 retrocopy
Ochotona princeps ENSOPRG00000000976 2 retrocopies
retro_opri_1078 , retro_opri_696,
Pongo abelii ENSPPYG000000107271 retrocopy
Pan troglodytes ENSPTRG000000132751 retrocopy
Pteropus vampyrus ENSPVAG000000004201 retrocopy
Rattus norvegicus ENSRNOG000000059241 retrocopy
Sus scrofa ENSSSCG000000070851 retrocopy
Tupaia belangeri ENSTBEG000000176348 retrocopies
Tursiops truncatus ENSTTRG000000072911 retrocopy



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