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mmu_ciTor1b_1757
Basic information of circular RNA
PanCircBase ID:
mmu_ciTor1b_1757
mm39_Chr. Position ID:
chr2|30844029|30845786|+
Gene name:
Tor1b
Transcript:
ENSMUST00000028199.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
1757
Exon/intron sizes in nt:
1757
Flanking exon/introns:
chr2:30844029-30845789
Splice length:
1757
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCAAGAAAACCTACCGATTTTTGATCATATGCCTGGGGTACTTTACTCAGTAGCTCTGGCCTCTGCTTTTCTTTCTCTGCCTTGAAGTGCTCCATCTGGCCTCTGCTTTGCTTTCTGCTATTTATTTGACTGAGTTTTACTGTGTAGGTCTGGCAGGCCTGGAACTCACAGAGATCTACCTACCTCTGCCCTCCAAAGGCTGGGATTAAATGCCTAGCCTCTCTTTATTTATACTTTCTGAGACAGTGCCTCATCGTGTAGTCCAGGCTGGCTTTGGTGTTAGGGATCCAGCTTTCTGAGGGCTGAGATCAACAGGCATCTATCAATTTGCCCAGTTTATGGCATGTGGGAGAGAGGGTGGTTTTAGACAGGGTCTAATGTAGCCCAGGTTGGCTTCAAACTCACTATAAATAGCAGAGGCTGGCTTTGAACTTCTGATCCTCCTACCTTCAACTTCCAAGTGCTGGGATTATAGGTGTGTCCCATCTTCTTTGTTTCTAAAATTGCTATTCCAAAATAATCCAGTGAGGTAGGGGATGCTATGATCATTTAAAGATGGAGCCAACTAGTGTAGGGGTGAGGTGGGGTGGGGTATCATTCCTGGGATAGGGGGAGGGAGGAGGGGACTGAAATCAGAGAAAGTGGACAAGAGAGGCAAGGTGACTTGTCCCTCACAACCTGAACTCCTCACCTCCTGTCTCCAGGCCTCTGCCTTAGGCACTCATAAAGGGATTTCCATTCCCAGCAGGGCACAGGGTGTTAGGTAGGGCGGCCTTAGATAGTTTGCTTGGGCATGGCCACATCTAAAACTTGCCACCTCTGTCTGCTGCCCGTGTGAGTCGGAAGCAAAGCTCCAGCCTGGTTTTCCTTGTGAGATCTCTGCATTTTTCATCCCTTGAATCTGATGTAAATGACTATCTTGCTTATTGGTGTTTGACCCCCTGCTGGACGGAGCTAGCAAACAGAAACCCCATCGAAGGAGGAAAGGAAACTGTTGTCAGCCAGGGAGGAGTGCCAGAAGGAAGGGTTTATTTGAAGGTGCTGAGGAAGTGCTGTGCCACCAAGCTACCCGTCGCCACCATGAAGTTATGTTCATGTTTTCCAGATTTTATTATAGATCTCTTGAAGTACAGTATTTGCAGTGGGAAGTCTGTAGTTGTGGCCTTTCCCACTTAGGGGATGAGAAGTTGTTGCTTGGGTGTTTCAATAAAGCAAGGGTGCTAGGGAGGTAGCTCAGGGTTTCTCATTCCAGCCAGGGCAGCACCTTCACTCACTGTGTCAGTTCAGAGCCTCGGCCCCCTGCATTGTGCAGATCTGAATCCAGTTGTCATTTCTGTGTGCCTGTTGTCTCGGCTTCTTTTCCTGTTGCTGTGATGAAATACCTTGACAGAGCTACTCAGGGACTCTCTCCTTCCGCCTCGCTTGGGCCTGTACGCAGAGGTGTGTCAGTGGCTGTATGCAGAGGTGTATCAGTGGCTGTATGCAGAGGTCTATCAGTGGCTGTACACAGAGGTGTGTCAGTGGTGGTTTGTATCAGTGGTGTTTTTTGGAAGTCAGTTCTCTCCTTTTAGCCATTTGGGTCCCAGGGATTCAAGTCAAGTGGCCAGGCTTTGATGGCTAGTGCCTTTCCACTTGTGGGAAAGTGTCATCTGCTTTGTGGGGGCAGTATGCAGTTGGTAGCTTCCCGAGGCCCAGGCAGCACCCCCACTCCATCCTCTGGAACATCCTCTGAGCTGCCTCTCTCTTTGAGGTTGGTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTTGGTAGCTTCCCGAGG
60.11
AAAGCAGAGGCCAGAGCTAC
59.75
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTTGGTAGCTTCCCGAGG
60.11
GAAAAGCAGAGGCCAGAGCT
60.32
158
PCR template sequence:
TGGGGGCAGTATGCAGTTGGTAGCTTCCCGAGGCCCAGGCAGCACCCCCACTCCATCCTCTGGAACATCCTCTGAGCTGCCTCTCTCTTTGAGGTTGGTCGCAAGAAAACCTACCGATTTTTGATCATATGCCTGGGGTACTTTACTCAGTAGCTCTGGCCTCTGCTTTTCTTTCTCTGCCTTGAAGTGCTCCATCTGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
34
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(3), mmu-miR-351-5p(2), mmu-miR-125a-5p(2), mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-221-3p(1), mmu-let-7c-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-146a-5p(1), mmu-miR-217-5p(1), mmu-miR-222-3p(1), mmu-miR-709(1), mmu-miR-320-3p(1), mmu-miR-324-5p(1), mmu-miR-185-5p(1), mmu-miR-10b-5p(1), mmu-miR-214-3p(1), mmu-let-7d-5p(1), mmu-miR-483-5p(1), mmu-miR-370-3p(1), mmu-miR-425-5p(1), mmu-miR-362-5p(1), mmu-miR-383-5p(1), mmu-miR-342-5p(1), mmu-miR-98-5p(1), mmu-miR-325-3p(1), mmu-miR-342-3p(1), mmu-miR-188-3p(1), mmu-miR-350-3p(1), mmu-miR-670-5p(1), mmu-miR-697(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTGAGGTTGGTCGCAAGAAAACCTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CITOR1B_1757_ORF_3
0.6543
-0.094360332
0.036196105
168
ORF sequence:
ATGGCTAGTGCCTTTCCACTTGTGGGAAAGTGTCATCTGCTTTGTGGGGGCAGTATGCAGTTGGTAGCTTCCCGAGGCCCAGGCAGCACCCCCACTCCATCCTCTGGAACATCCTCTGAGCTGCCTCTCTCTTTGAGGTTGGTCGCAAGAAAACCTACCGATTTTTGA
Peptide sequence:
MASAFPLVGKCHLLCGGSMQLVASRGPGSTPTPSSGTSSELPLSLRLVARKPTDF
IRESfinder result
IRESfinder score
0.751152464
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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