RetrogeneDB ID:

retro_opri_211

Retrocopy
location
Organism:Southern American pika (Ochotona princeps)
Coordinates:GeneScaffold_3670:183169..183571(+)
Located in intron of:ENSOPRG00000016897
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PFDN4
Ensembl ID:ENSOPRG00000005385
Aliases:None
Description:prefoldin subunit 4 [Source:HGNC Symbol;Acc:8868]


Retrocopy-Parental alignment summary:






>retro_opri_211
ATGGCGGACACCATGAAGAAGGCAGCTGCAGAAGATGTCAATGTTACTTTTGAAGATCAACAAAAGATAAATAAATTTGC
ACGGAATACGAGTAGAATCACAGAGCTAAAAGAAGAAATAGAAGTAAAAAAGAAACAACTCCAGAATTTAGAGGATGCTT
GTGATGATATCATGCTTGCAGATGACGACTGCTTGATGATTCCTTATCAAATTGGTGATGTTTTCATTAGCCACTCACAA
GAAGAAACACAGGAAATGTTAGAAGAGGCAAAGAAAAATTTGCAAGAAGAAACTGACGCCTTAGAATCCAGAGTGGAATC
AATTCAACGGGTGTTAGCAGATTTGAAAGTTCAATTATATGCAAAATTTGGGAGCAACATAAACCTTGAAGCTGACGAAA
GT

ORF - retro_opri_211 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 98.51 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAATMKKAAAEDVNVTFEDQQKINKFARNTSRITELKEEIEVKKKQLQNLEDACDDIMLADDDCLMIPYQ
MA.TMKKAAAEDVNVTFEDQQKINKFARNTSRITELKEEIEVKKKQLQNLEDACDDIMLADDDCLMIPYQ
RetrocopyMADTMKKAAAEDVNVTFEDQQKINKFARNTSRITELKEEIEVKKKQLQNLEDACDDIMLADDDCLMIPYQ
ParentalIGDVFISHSQEETQEMLEEAKKNLQEEIDALESRVESIQRVLADLKVQLYAKFGSNINLEADES
IGDVFISHSQEETQEMLEEAKKNLQEE.DALESRVESIQRVLADLKVQLYAKFGSNINLEADES
RetrocopyIGDVFISHSQEETQEMLEEAKKNLQEETDALESRVESIQRVLADLKVQLYAKFGSNINLEADES

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






RNA-Seq - click to see more details

Ochotona princeps was not studied using RNA-Seq expression data.