RetrogeneDB ID:

retro_opri_851

Retrocopy
location
Organism:Southern American pika (Ochotona princeps)
Coordinates:scaffold_3699:56503..56940(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:WBP2
Ensembl ID:ENSOPRG00000006045
Aliases:None
Description:WW domain binding protein 2 [Source:HGNC Symbol;Acc:12738]


Retrocopy-Parental alignment summary:






>retro_opri_851
ATGGCGCTCAACAAGAATCATTCGGAGGGCGGCGGAGTGATCGTTAACAACACGGAGAGCATCCCATGTCCTATGATCAT
GTGGAGCTTACATTCGCCATGAAGAACATGGCCGAGGCCTTCAAAGGCACCAACAAAGGCACCATCTATCTTACCCCCTA
CCGGGTCATCTTCCTGTCCAAAGGGAAGGACGCCATGCAGTCCTTCATGATGCCCTTTTACCTGATGAAGGACTGCGAGA
TCAAGCAGCCCGTGTTTGGGGCCAACTACATCAAGGGGATGGTGAAGGCCAAAGTCGGAGGTGGCTGGGAGGGTGCTGCA
TCCTACAAGTTGACCTTCACAGCGGGGGGCGCCATTGAGTATGGACGGCGCAAGCTCCAGGTGGCATCTCAAGAGTTCTA
TCCAGGACCTCCCATGATGGATGGGGCCATGGGATAC

ORF - retro_opri_851 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.03 %
Parental protein coverage: 91.14 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMALNKNHSEGGGVIVNNTESIL-MSYDHVELTFDMKNMPEAFKGTKKGTVYLTPYRVIFLSKGKDAMQSF
MALNKNHSEGGGVIVNNTESI..MSYDHVELTF.MKNM.EAFKGT.KGT.YLTPYRVIFLSKGKDAMQSF
RetrocopyMALNKNHSEGGGVIVNNTESIP<MSYDHVELTFAMKNMAEAFKGTNKGTIYLTPYRVIFLSKGKDAMQSF
ParentalMMPFYLMKDCEIKQPVFGANYIKGMVKAEAGGGWEGATSYKLTFTAGGAIEFGQRMLQVASQASRGEAP-
MMPFYLMKDCEIKQPVFGANYIKGMVKA..GGGWEGA.SYKLTFTAGGAIE.G.R.LQVASQ......P.
RetrocopyMMPFYLMKDCEIKQPVFGANYIKGMVKAKVGGGWEGAASYKLTFTAGGAIEYGRRKLQVASQEFYPGPPM
Parental-SGAYGY
..GA.GY
RetrocopyMDGAMGY

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_851 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 22 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000049461 retrocopy
Callithrix jacchus ENSCJAG000000376191 retrocopy
Felis catus ENSFCAG000000057601 retrocopy
Homo sapiens ENSG000001324711 retrocopy
Gorilla gorilla ENSGGOG000000092412 retrocopies
Macropus eugenii ENSMEUG000000000701 retrocopy
Macaca mulatta ENSMMUG000000093812 retrocopies
Monodelphis domestica ENSMODG000000077253 retrocopies
Mustela putorius furoENSMPUG000000137751 retrocopy
Nomascus leucogenys ENSNLEG000000016251 retrocopy
Ochotona princeps ENSOPRG00000006045 2 retrocopies
retro_opri_301, retro_opri_851 ,
Pongo abelii ENSPPYG000000086403 retrocopies
Pan troglodytes ENSPTRG000000096601 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000214212 retrocopies



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