RetrogeneDB ID:

retro_opri_858

Retrocopy
location
Organism:Southern American pika (Ochotona princeps)
Coordinates:scaffold_3826:120282..120675(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RAB6C
Ensembl ID:ENSOPRG00000010355
Aliases:None
Description:RAB6C, member RAS oncogene family [Source:HGNC Symbol;Acc:16525]


Retrocopy-Parental alignment summary:






>retro_opri_858
ATGTTCCTGGGGGAGTAGAGCATTGGAAAGACATTCTTGATCACCAGATTCATGTATGGTATTTTTGACAACACCTACCA
GGAAAAAAACTGGCATTGATTTTTTTAAATCAAAAACAATGTGTTTGGAGGATTGAGTAATCAGGGTATGGTGTGGGATA
CTGTTGATCAGGAATGTTTCCATAGCCTCGTTTCCACTTACATCCGCACTTCTGCTGCAGCCATAATAGTTTATGATATT
ACAAGTGTCAATTGCTTCCAGCAAACTACAAAATGGATTGACAATATCAGAACAGAAAGAAGAAGTGGTGTTATCATCAT
GCTAGTACGAAATGAAACAGATGTTGTTGACAAGAAGCAAGTGTCTACTGAGGAAGGAGAGAGGAAAGCCAGA

ORF - retro_opri_858 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.42 %
Parental protein coverage: 68.78 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalVFLGEQSVGKTSLITRFMYDSFDNTYQAT-IGIDFL-SKTMYLEDRTIRL-QLWDTAGQERFRSLIPSYI
.FLGE.S.GKT.LITRFMY..FDNTYQ....GIDF..SKTM.LED..IR....WDT..QE.F.SL...YI
RetrocopyMFLGE*SIGKTFLITRFMYGIFDNTYQEK>TGIDFFKSKTMCLED*VIRV<MVWDTVDQECFHSLVSTYI
ParentalRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAK
R.SAAA..VYDIT.VN.FQQTTKWID..RTER.S.VIIMLV.N.TD..DK.QVS.EEGERKA.
RetrocopyRTSAAAIIVYDITSVNCFQQTTKWIDNIRTERRSGVIIMLVRNETDVVDKKQVSTEEGERKAR

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.