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mmu_ciTtbk2_2621
Basic information of circular RNA
PanCircBase ID:
mmu_ciTtbk2_2621
mm39_Chr. Position ID:
chr2|120653101|120655722|-
Gene name:
Ttbk2
Transcript:
ENSMUST00000085840.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
2621
Exon/intron sizes in nt:
2621
Flanking exon/introns:
chr2:120653089-120655722
Splice length:
2621
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTGGTATTGTTTACAGTTAGGAATGAGAGGGATTGCTAGAAACTGATGTTAAAGTTTTAAAAATATGGGGGGGGTGGTGGCTAATGTGCATTCCTGCAATCGTGTGCCACTGCCCTTGTATGGAGGTCAGAGGACAAATTGCAGGAGTCTGTTTTCTCTTCCCATCATGTGGGTCCCAGGAATCAAACTCATGTCATCAGGCTTGGCTGTCACCACAGAGCTATCTTGCTGGCTCAAAGGTCAAGTTGGTTTATTGTCCTAGACCTAATATATTTTGGAAAACCTATATGGTCTTCATTACCTCAAGTTCTTTTCACTTTCCTTTATTTGAGGCCAAAAGAGGGAATCAGATCCCTCAAAGCTGAACTTATGATAATTGTTAGCTGCCGTTCATGTGCTAGGAAGTGGAACACTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTTTCTCTCTCCCCCTCCCCCACTCTGCCCTCCCCCTCTCTCTCACTCACTCACTCACACTCATGTAGCCTAGGCTATCCTTGATATGTAGCTGAGGATGGCCTTTGTCTGGCTTAATAGATTAGAGTAGCTATGATAGACTATATGGGCAGTTAAGGCTAAAATATCTGCTTTCTGGCCCTTTACTGAAAATGTTCCTTACTGTTACAAAGAACCGTTTCATTGCCTTTTGGCTTAACTTCCTTTTTTTCTTCTCTCTTTTAAATAAAAGCAGTTAGTGTAATTTTACACAAAGGCAGCATAACATACCCTTTTTTTTCATCTTGCTTTTTTCTCTTAACAATATTTGGATTAGAAGACAGCTCAGGAGCCGGGCGTGGTGGCGCACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGCAGATTTCTGAGTTTGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAACAAAAAAAAAAAAAAAAAAGAAGACAGCTCAGTTGGTAAAGTACTTGCCTCTCAAGCACAGCATCCCTGTTTAATATCCAAAACCTGAATAAAACTGCTGGGTGTGAGGGAGAGTCAAGGAGGTCTGGGGCTTGCTGGCCAACCAATCAGTGAGCTCTAGACCACTGAGACTCTGACTCATAGGTGATGTTCCTAGGTGTCTTAGGGTTGCTATTGCTGTGATAAAACACCATGACCAAAGTGTGGGGAGGGAAGGGTTTACTCAGCTTACTGTTTCCTCTTCACAGTTCATCATCACAGGAAGGCAGGACAGGAACTCAAGCAGAACAGGAACCTAGAGGCAGGAGCTGATGCAGAGGCCATGGAGGAGGATACTGCTTACCAAATTGCTCCCCAGGGCTGCTCAGCCTGCTTTCTTATAGAACCCAGGACCATTAGCCCAGGGATGGCTCCATTCACAATGGGCTGGGTCCTCCCCAATCAACAAATTAAGAAAATCCCTAACAGGCTTGCTTACAGCTGGATTTTATTGGAGGCATTTTCTCAGTTGAGGCTCTCTCCTCTCTGATGACTCCAAGTTTGTGTCAGCTTGACATAAAACTAGGCAGTACACCAAGGATGACATCCAGGGTGGATTTCTGGCTTCCACACATACAACATGTTAAAAAGTCACTTTGATGTTTTTCTCTCCTGTTTGTGGGATACATTATAGTTTCCATGTCTATTAGGCTGTATTTTTTGTTCTTTGTTTTCCTCGAGCTACTGTTCTTTTGCTGTTTTTCTTTTTAAAAAATTTATTGTTTTAGTGGTTTGTCACAGCCTTTTTCTTCATACATTTGTTAATTCTTATGCATTTGAAGTGCATTTTGTAAGATATAGGTGAGATTTTTCATAAGGTAAAGGTTCTGGCTGCCAATCCTGACAACTTGTTTAGTTACTAGACCCTATATGGTAAAAGGACAGAACTGACTCTTATAAGTTCTCCTCTGACTTCTATATTTGCATGTACCATTACATGCATACATGGCACACACACATGAAAAATGAGCAAATGTATTTAACAAAATATTAAATGTTATTGGCTTTAATGATGTTAAATTGTATGCTAAACCTGTTACATGTAAGCTGTTCCTGGGTCTGGTAGCAGATGCTGTGATACATACAGTTACTTGGGAGGCTGAGCAGAAGAACCACAATATCAAAGCCATCTTTGGTTACAGAGTGAGTTCGTAGGAGCCTGAACAATTTGAGCCTGTCTTAAAAAAATAAAAAGGCTAAGGATATAGCTTAGTGGTAAGCCCCTGCCTAACATGCTTGGGGCCCTAGGATCAAAACCGTATAAAATGTTGTAAATTGGCTACCATGCCTTTTTCTCTGGTAATGTTGTATACTCAGGAAAATGGTCCTAATGGGTCAACTGCCATTTGACCCTCATGCTTACTCTGCTATTTCAGTTATGTAAATATATGCACTATGTCTTTGTGATGGCTAGTCATCTGTACTGGAAAGACCATGTGAATTACAGAGTTTTTCTAATGTAGTTGCAGAGAGTCCCCTATCCTTCTGAGGAAGCAACATGATAATGTATAGAATCAGTAGGCTCTTGAGGCTAGAATATTATCTGTGTTAATTAGCTCTGTTGCTTCTGTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCAGTAGGCTCTTGAGGCT
57.83
ATGCACATTAGCCACCACCC
60.68
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGTAGGCTCTTGAGGCTAGA
59.76
ATGCACATTAGCCACCACCC
60.68
151
PCR template sequence:
TCCCCTATCCTTCTGAGGAAGCAACATGATAATGTATAGAATCAGTAGGCTCTTGAGGCTAGAATATTATCTGTGTTAATTAGCTCTGTTGCTTCTGTTTGTTGGTATTGTTTACAGTTAGGAATGAGAGGGATTGCTAGAAACTGATGTTAAAGTTTTAAAAATATGGGGGGGGTGGTGGCTAATGTGCATTCCTGCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
27
Interacting miRNAs (#binding sites)
mmu-miR-185-5p(4), mmu-miR-297a-5p(3), mmu-miR-222-3p(2), mmu-miR-673-5p(2), mmu-miR-3470b(2), mmu-miR-9-5p(1), mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-miR-221-3p(1), mmu-miR-135a-5p(1), mmu-miR-223-3p(1), mmu-let-7c-5p(1), mmu-miR-381-3p(1), mmu-miR-30d-5p(1), mmu-miR-411-3p(1), mmu-miR-218-5p(1), mmu-miR-382-5p(1), mmu-miR-541-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-539-5p(1), mmu-miR-3087-3p(1), mmu-miR-188-3p(1), mmu-miR-350-3p(1), mmu-miR-1904(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTGCTTCTGTTTGTTGGTATTGTTT
siRNA sets
AAACAATACCAACAAACAG, AACAATACCAACAAACAGA, AATACCAACAAACAGAAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.852513047
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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