RetrogeneDB ID:

retro_opri_921

Retrocopy
location
Organism:Southern American pika (Ochotona princeps)
Coordinates:scaffold_45186:39298..39655(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSOPRG00000014505
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_opri_921
TCTAAGCCCATCCCACGTTATGGTTATAAACCCTCCCCACCAAATGGATGTGGCTCTCCATTGTTTGGTGTCCATATCAA
CATTGGCATCCCTTCCCTGACCAAGTGCTGCAACCAACATGACAGGTGCTATGAGACGTGTGGCAAAAGCAAGAACGACT
GTGATGAGGAATTCCAGTACTGCCTCTCCAAAATCTGCCGGGGTGTGCAGAAAACGCTGGGACTAGCTCAGCACGTGCAA
CCGTGTGAAACAGCAGTGGAGCTCCTGTTTGACAGCGTCATCCACCTGGGCTGTAAGCCCTACCTGGACAGCCAGCGGGC
CACATGCATGTGTCGCTACGAAGAGAAATCTGACCTT

ORF - retro_opri_921 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 96.64 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalSKPIPRYGYKPSPPNGCGSPLFGVHLNIGIPSLTKCCNQHDRCYETCGKSKNDCDEEFQYCLSKICRGVQ
SKPIPRYGYKPSPPNGCGSPLFGVH.NIGIPSLTKCCNQHDRCYETCGKSKNDCDEEFQYCLSKICRGVQ
RetrocopySKPIPRYGYKPSPPNGCGSPLFGVHINIGIPSLTKCCNQHDRCYETCGKSKNDCDEEFQYCLSKICRGVQ
ParentalKTLGLAQHVQACETAVELLFDSVIHLGCKPYLDSQRAACTCRYEEKSDL
KTLGLAQHVQ.CETAVELLFDSVIHLGCKPYLDSQRA.C.CRYEEKSDL
RetrocopyKTLGLAQHVQPCETAVELLFDSVIHLGCKPYLDSQRATCMCRYEEKSDL

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_921 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 14 parental genes, and 29 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000152301 retrocopy
Callithrix jacchus ENSCJAG000000161692 retrocopies
Dasypus novemcinctus ENSDNOG000000165737 retrocopies
Homo sapiens ENSG000001237391 retrocopy
Gorilla gorilla ENSGGOG000000010822 retrocopies
Loxodonta africana ENSLAFG000000008522 retrocopies
Mustela putorius furoENSMPUG000000086371 retrocopy
Mus musculus ENSMUSG000000279991 retrocopy
Otolemur garnettii ENSOGAG000000046861 retrocopy
Ochotona princeps ENSOPRG00000014505 2 retrocopies
retro_opri_30, retro_opri_921 ,
Pan troglodytes ENSPTRG000000163621 retrocopy
Sus scrofa ENSSSCG000000091393 retrocopies
Tarsius syrichta ENSTSYG000000047564 retrocopies
Vicugna pacos ENSVPAG000000098421 retrocopy



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