RetrogeneDB ID:

retro_opri_909

Retrocopy
location
Organism:Southern American pika (Ochotona princeps)
Coordinates:scaffold_44:838266..838626(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL31
Ensembl ID:ENSOPRG00000001204
Aliases:None
Description:ribosomal protein L31 [Source:HGNC Symbol;Acc:10334]


Retrocopy-Parental alignment summary:






>retro_opri_909
ATGGTTCTCGCAAAGAAGGACAGCGAGAAGGGCTATTCTGGCATCAACGAGGTGGCGATACCAGAGCACACCATCAACAT
TCACAAAAGCATCCACAGAGTGGACATCAAGAAGCTGGTTCGTTGGGCACTGAAACAGATTTGGAGGTTTGCCACGAAAA
AGATGGGGACTCCAGATGTGTGCATTGATCCCAGGCTGAACAAAGCTGTCTGGGCCAAAGGAATAAGGAATGTCCTATAT
CACATCCATTTGAGATCAACCAGAAAACACAAGGAGAATGAAGACTCGCCACACAAGCTCTCTACTTTGGTTACCTATGT
ACTTGTCACCACTTTCAAAATCTACACTGTAGATGAGAAC

ORF - retro_opri_909 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64. %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAPAKKGGEKKKGRSAINEVVTREYTINIHKRIHGVGFKKRAPRALKEIRKFAMKEMGTPDVRIDTRLNK
M..AKK..EK..G.S.INEV...E.TINIHK.IH.V..KK....ALK.I..FA.K.MGTPDV.ID.RLNK
RetrocopyMVLAKKDSEK--GYSGINEVAIPEHTINIHKSIHRVDIKKLVRWALKQIWRFATKKMGTPDVCIDPRLNK
ParentalAVWAKGIRNVPYRIRVRLSRKRNEDEDSPNKLYTLVTYVPVTTFKNLQTVNVDEN
AVWAKGIRNV.Y.I..R..RK..E.EDSP.KL.TLVTYV.VTTFK......VDEN
RetrocopyAVWAKGIRNVLYHIHLRSTRKHKENEDSPHKLSTLVTYVLVTTFK---IYTVDEN

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.