RetrogeneDB ID:

retro_opri_1063

Retrocopy
location
Organism:Southern American pika (Ochotona princeps)
Coordinates:scaffold_64337:1051..1619(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:C5orf45
Ensembl ID:ENSOPRG00000015567
Aliases:None
Description:chromosome 5 open reading frame 45 [Source:HGNC Symbol;Acc:30817]


Retrocopy-Parental alignment summary:






>retro_opri_1063
CGCGTCCTGAGGTGCCGCTGCTGCGACCTCTTCTAACCGCCCCACCTCAAAAAGAGTTCCAAATGGACATGCAAAGCATG
CGCTAAGAGCAGTCGTTTTTGCAGAGCTACAGTGAGGGCTGCGGTGCTGTGCACAGACGCCATGTCCAAAAGTTACATCG
GCTGCAAAGACAGGTTTCACAGCTGTAGCTCAAGCCTCTGGAAGGTTCTGGAAGTGTCAGTGAAGAACTGGAAGATCACC
AGCAGGCAGAGAATGTGGATCCTCAACCCTCTAGGTGCCGCTGGCTGAAGTTTCTAGACAAGGACTCCCCAGGACTGCAG
CTGGGAGGAGAGTGTTTCCATGAACAGTCCTCATCCGACATGGAGAACCCGGACCCTCCCTTCAGTTGGGAGCTGCCCAG
AAAAAGGAAATGGCGCCTGAGCCCAGCCCAGCTGTCACACAAGCGTGACATCCCAGACTTGGGCACTCCAAGGGACACCT
GGCACCCCAGAAGGACACTCGTGGCCTGACCTTGAAGGTGAAGGAAGGTGGCAGCCACTGCCTCTGGAGCCCTGTGGACC
CACCACCC

ORF - retro_opri_1063 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 67.18 %
Parental protein coverage: 59.75 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalRVLRCCSCGLCQAHQLKKSPKWTCKACGK-KQSFLRSYGEGSGADCRRHVQKLNLLQGQISELPLRSLEG
RVLRC..C.L.....LKKS.KWTCKAC.K..QSFL.SY.EG.GA..RRHVQKL..LQ.Q.S.L.L..LEG
RetrocopyRVLRCRCCDLF*PPHLKKSSKWTCKACAK<EQSFLQSYSEGCGAVHRRHVQKLHRLQRQVSQL*LKPLEG
ParentalSGSVSEEEIEDHHEAENVHPQQPSESRWLKFLHKDSPELELGGGVCFRGQSSSDMEESDPAFSQELPRKR
SGSVSEE..EDH..AENV.PQ.PS..RWLKFL.KDSP.L.LGG..CF..QSSSDME..DP.FS.ELPRKR
RetrocopySGSVSEE-LEDHQQAENVDPQ-PSRCRWLKFLDKDSPGLQLGGE-CFHEQSSSDMENPDPPFSWELPRKR
ParentalKWSPSPAQLSHNCDIPDLATPRGTW-PPQQDSPGLNVKVKAGSSHRLWNHEDPRP
KW..SPAQLSH..DIPDL.TPR.TW..PQ.D..GL..KVK.G.SH.LW...DP.P
RetrocopyKWRLSPAQLSHKRDIPDLGTPRDTW<APQKDTRGLTLKVKEGGSHCLWSPVDPPP

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