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mmu_circUsp33_1183
Basic information of circular RNA
PanCircBase ID:
mmu_circUsp33_1183
mm39_Chr. Position ID:
chr3|152063476|152074287|+
Gene name:
Usp33
Transcript:
ENSMUST00000117492.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
2,3,4,5,6,7,8,9,10
Exon/intron offsets:
0,306,796,2443,4060,6138,8374,8901,10396
Genomic length:
10811
Exon/intron sizes in nt:
13,25,46,31,53,10,37,00,00,00,000
Flanking exon/introns:
chr3:152052276-152063476|chr3:152074287-152075913
Splice length:
1183
Other database IDs:
CIRCpedia: MMU_CIRCpedia_10361, circAtlas: mmu-Usp33_0018
Human Ortholog IDs:
Mature spliced Sequence:
GTTTTGCCTGATTTGAAAAGCCTTGAGAAAGAGAAGGAAAACTGTAAGAAAATGACGACTTTTCGAAATCATTGTCCACATTTGGATTCAGTTGGTGAAATAACGAAAGAGGACTTGATACAGAAATCTCTCGGCGCTTGTCAGGACTGTAAAGTCAGAGGACCAAACCTGTGGGCGTGCCTGGAGAATAGGTGCTCCTATGTTGGCTGCGGGGAGTCGCAAGTGGACCACAGCACCATACACTCGCAGGAGACAAAGCATTATCTAACTGTGAACCTCACCACTCTTCGAGTATGGTGTTATGCTTGCAGCAAAGAAGTATTTTTGGATAGAAAATTAGGAACTCCTCCTTCATTACCTCATGTAAGACAGCCTCAACAAACACAAGAAAACAGTGTCCAGGATTTTAAAATTCCCAGTAATCCAGCATTGAAAACCCCCATGGTTGCTGTGTCTGAAGATCTGGATATAGAAGTGGAAGAGGAAGACGAGCTGAAGGCTAGAGGCCTGACAGGTTTGAAAAACATTGGAAATACTTGTTATATGAACGCGGCGCTGCAGGCTCTTTCTAACTGCCCACCTTTGACACAGTTCTTTCTTGATTGTGGAGGACTGGCTAGAACAGATAAGAAACCAGCAATTTGTAAAAGTTATCTCAAACTAATGACCGAGTTGTGGCACAAGAGCAGGCCAGGATCTGTTGTGCCGGCTAATCTGTTCCAAGGAATTAAAACTGTAAATCCAACTTTTCGAGGTTATTCTCAGCAGGATGCCCAGGAATTCCTTCGCTGTCTAATGGACCTGCTTCATGAGGAGCTGAAGGAGCAGGTCATGGAAATGGAGGAAGAGCCTCAAACACTAACTTCTGAGGAGACGGTGGAGGAAGAGAAGAGCCAGTCAGATGTGGATTTTCAGTCGTGCGAGTCTTGTAGCAGCAGCGAGAAAGCAGAAAATGAGAGTGGCTCCAAAGGCTTTCCTGAGGACAGCAATGAGACCACCATGCTCATCCAGGACGAGGATGACCTGGAGATGGCCAAAGACTGGCAGAAAGAGAAGGTGTGCAATAAGATCAACAAGGCAAATGCCGATGTAGAACTGGACAAAGACAGGGACACAGTGTGTGAAACAGTTGACCTAAACAGCCAGGAGACCGTCAAAGTGCAGATACACGGCAGAGCCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTAAACAGCCAGGAGACCG
60.11
TTCACCAACTGAATCCAAATGTGG
59.96
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAAACAGCCAGGAGACCGTC
59.39
TTCACCAACTGAATCCAAATGTGG
59.96
147
PCR template sequence:
GCCGATGTAGAACTGGACAAAGACAGGGACACAGTGTGTGAAACAGTTGACCTAAACAGCCAGGAGACCGTCAAAGTGCAGATACACGGCAGAGCCTCAGGTTTTGCCTGATTTGAAAAGCCTTGAGAAAGAGAAGGAAAACTGTAAGAAAATGACGACTTTTCGAAATCATTGTCCACATTTGGATTCAGTTGGTGAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-25-3p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-363-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-370-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-410-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCAGAGCCTCAGGTTTTGCCTGATT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCUSP33_1183_ORF_1
0.9738
0.186031135
0.996015603
1143
ORF sequence:
ATGACGACTTTTCGAAATCATTGTCCACATTTGGATTCAGTTGGTGAAATAACGAAAGAGGACTTGATACAGAAATCTCTCGGCGCTTGTCAGGACTGTAAAGTCAGAGGACCAAACCTGTGGGCGTGCCTGGAGAATAGGTGCTCCTATGTTGGCTGCGGGGAGTCGCAAGTGGACCACAGCACCATACACTCGCAGGAGACAAAGCATTATCTAACTGTGAACCTCACCACTCTTCGAGTATGGTGTTATGCTTGCAGCAAAGAAGTATTTTTGGATAGAAAATTAGGAACTCCTCCTTCATTACCTCATGTAAGACAGCCTCAACAAACACAAGAAAACAGTGTCCAGGATTTTAAAATTCCCAGTAATCCAGCATTGAAAACCCCCATGGTTGCTGTGTCTGAAGATCTGGATATAGAAGTGGAAGAGGAAGACGAGCTGAAGGCTAGAGGCCTGACAGGTTTGAAAAACATTGGAAATACTTGTTATATGAACGCGGCGCTGCAGGCTCTTTCTAACTGCCCACCTTTGACACAGTTCTTTCTTGATTGTGGAGGACTGGCTAGAACAGATAAGAAACCAGCAATTTGTAAAAGTTATCTCAAACTAATGACCGAGTTGTGGCACAAGAGCAGGCCAGGATCTGTTGTGCCGGCTAATCTGTTCCAAGGAATTAAAACTGTAAATCCAACTTTTCGAGGTTATTCTCAGCAGGATGCCCAGGAATTCCTTCGCTGTCTAATGGACCTGCTTCATGAGGAGCTGAAGGAGCAGGTCATGGAAATGGAGGAAGAGCCTCAAACACTAACTTCTGAGGAGACGGTGGAGGAAGAGAAGAGCCAGTCAGATGTGGATTTTCAGTCGTGCGAGTCTTGTAGCAGCAGCGAGAAAGCAGAAAATGAGAGTGGCTCCAAAGGCTTTCCTGAGGACAGCAATGAGACCACCATGCTCATCCAGGACGAGGATGACCTGGAGATGGCCAAAGACTGGCAGAAAGAGAAGGTGTGCAATAAGATCAACAAGGCAAATGCCGATGTAGAACTGGACAAAGACAGGGACACAGTGTGTGAAACAGTTGACCTAAACAGCCAGGAGACCGTCAAAGTGCAGATACACGGCAGAGCCTCAGGTTTTGCCTGA
Peptide sequence:
MTTFRNHCPHLDSVGEITKEDLIQKSLGACQDCKVRGPNLWACLENRCSYVGCGESQVDHSTIHSQETKHYLTVNLTTLRVWCYACSKEVFLDRKLGTPPSLPHVRQPQQTQENSVQDFKIPSNPALKTPMVAVSEDLDIEVEEEDELKARGLTGLKNIGNTCYMNAALQALSNCPPLTQFFLDCGGLARTDKKPAICKSYLKLMTELWHKSRPGSVVPANLFQGIKTVNPTFRGYSQQDAQEFLRCLMDLLHEELKEQVMEMEEEPQTLTSEETVEEEKSQSDVDFQSCESCSSSEKAENESGSKGFPEDSNETTMLIQDEDDLEMAKDWQKEKVCNKINKANADVELDKDRDTVCETVDLNSQETVKVQIHGRASGFA
IRESfinder result
IRESfinder score
0.485885215
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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