RetrogeneDB ID:

retro_itri_1465

Retrocopy
location
Organism:Squirrel (Ictidomys tridecemlineatus)
Coordinates:JH393497.1:1912098..1912488(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL32
Ensembl ID:ENSSTOG00000026505
Aliases:None
Description:ribosomal protein L32 [Source:HGNC Symbol;Acc:10336]


Retrocopy-Parental alignment summary:






>retro_itri_1465
ATAGCTGCCCTCAGACCTCTCATGAAGCCCAAGATCATCAACAAGAAGACCAAGAAATTTATCTTGCACCATGCCAAAAG
TCAGCATAACTGGTAGAAACCCAGAAGTATTGACAACAGAGTTGGGAAAAGACAGAGACGAGATCTTGATGCCCAATATT
GGTTATGGAAGCAAGAAAGCAAAGCACATGTCTGCCCAGTGGCTTCCATAAGTTCCTGATTCACAGCAGCAAGGAGGTAG
AAGTGCTGCTGATGTGCAGCGAATCTTGCTTGTACTGAGATTGCTTATGATGTTTCCTTCAAGAACCAGAGAGCCATGGT
GGAAAGAGCAACCCAGCTGACCGTTGAAGTCACCAATCCCAAAGGAAGACTGCACAGGGAGGAAAATGAA

ORF - retro_itri_1465 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 57.97 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMAALRPLVKPKIVKKRTKKFIRHQSDRYVKIKRNW-RKPRGIDNRVRRRFKGQILMPNIGYGSNKKTKHM
.AALRPL.KPKI..K.TKKFI.H......K...NW.R.P..............ILMPNIGYGS.KK.KHM
RetrocopyIAALRPLMKPKIINKKTKKFILH----HAKSQHNW>RNPEVLTTELGKD-RDEILMPNIGYGS-KKAKHM
Parental-LPSGFRKFLVHNVKELEVLLMCNKS-YCAEIAHNVSSKNRKAIVERAAQLAIRVTNPNARLRSEENE
.LPSGF.KFL.H..KE.EVLLMC..S..C.EIA..VS.KN..A.VERA.QL...VTNP..RL..EENE
Retrocopy>LPSGFHKFLIHSSKEVEVLLMCSES>ACTEIAYDVSFKNQRAMVERATQLTVEVTNPKGRLHREENE

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






RNA-Seq - click to see more details

Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.