RetrogeneDB ID:

retro_opri_492

Retrocopy
location
Organism:Southern American pika (Ochotona princeps)
Coordinates:scaffold_1379:160884..161169(-)
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:ENSOPRG00000002109
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_opri_492
GGGTTTTCTCCCCTCATGGCTGCGGCCATGGAACTGAGCGCCCACTACCTCCGGGAGAAGCTGCAGCGGGACCTGGAAGC
GGAGCATGTGGAGGTGGAGGACACGACCCCCAACCGCTGCGCCACCAGCTTCCGAGTCCTGGTGGTGTCCACCAAGTTCG
AGGGGAAGCCACTGCTGCAGAGACACCGGCTGGTGAACGAATGTCTATTGGAAGAGCTCCCACACATCCACGCGTTCGAG
CAGAAAACCCTGACGCCGGGGCAGTGGGCCCGGGAACAACCGAAA

ORF - retro_opri_492 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 97.89 %
Parental protein coverage: 70.9 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGVSPLMAAAMELSAHYLREKLQRDLEAEHVEVEDTTPNRCATSFRVLVVSTKFEGKPLLQRHRLVNECLS
G.SPLMAAAMELSAHYLREKLQRDLEAEHVEVEDTTPNRCATSFRVLVVSTKFEGKPLLQRHRLVNECL.
RetrocopyGFSPLMAAAMELSAHYLREKLQRDLEAEHVEVEDTTPNRCATSFRVLVVSTKFEGKPLLQRHRLVNECLL
ParentalEELPHIHAFEQKTLTPGQWAREQPK
EELPHIHAFEQKTLTPGQWAREQPK
RetrocopyEELPHIHAFEQKTLTPGQWAREQPK

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_492 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 17 parental genes, and 27 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000066611 retrocopy
Echinops telfairi ENSETEG000000065481 retrocopy
Homo sapiens ENSG000001696271 retrocopy
Gorilla gorilla ENSGGOG000000127242 retrocopies
Loxodonta africana ENSLAFG000000179101 retrocopy
Myotis lucifugus ENSMLUG000000034491 retrocopy
Macaca mulatta ENSMMUG000000073313 retrocopies
Monodelphis domestica ENSMODG000000156581 retrocopy
Nomascus leucogenys ENSNLEG000000010182 retrocopies
Oryctolagus cuniculus ENSOCUG000000075621 retrocopy
Ochotona princeps ENSOPRG00000002109 2 retrocopies
retro_opri_243, retro_opri_492 ,
Pongo abelii ENSPPYG000000072372 retrocopies
Pan troglodytes ENSPTRG000000079902 retrocopies
Rattus norvegicus ENSRNOG000000479882 retrocopies
Sorex araneus ENSSARG000000035792 retrocopies
Tarsius syrichta ENSTSYG000000062741 retrocopy
Tursiops truncatus ENSTTRG000000055432 retrocopies



Copyright © RetrogeneDB 2014-2017