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mmu_circTbc1d23_1201
Basic information of circular RNA
PanCircBase ID:
mmu_circTbc1d23_1201
mm39_Chr. Position ID:
chr16|56991985|57018747|-
Gene name:
Tbc1d23
Transcript:
ENSMUST00000023431.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
17,16,15,14,13,12,11,10,9,8
Exon/intron offsets:
0,1401,6309,11228,12757,15015,17639,19851,20986,26658
Genomic length:
26762
Exon/intron sizes in nt:
19,51,36,89,14,01,07,40,00,00,00,00,000
Flanking exon/introns:
chr16:56990803-56991985|chr16:57018747-57019086
Splice length:
1201
Other database IDs:
circAtlas: mmu-Tbc1d23_0012
Human Ortholog IDs:
Mature spliced Sequence:
GCTTTTTGGAAAGTACCCCGGCCAGCCTGAATCTGGAAGACATAGAAGACCTGTTCTCTTTGGCTCAGTATTACTGTAGTAAGACGCCAGCTTCTTTTAGGAAGGATAACCATCATCTCTTCGGTAGCACCCTGCTGGGGATCAAGGACGACGAGGCAGATCTGAGCCAGGCTCTGTGTCTGGCTGTTTCAGTATCAGAGATCCTTCAAGCTAATCAGCTGCAAGGGGAAGGAGTCCGGTTCTTCGTGGTGGACTGCCGTCCTGCGGAGCAGTACAATGCTGGGCATTTGGCAACCGCGTTCCACCTAGACTCAGACTTGATGCTCCAGAATCCATCTGAGTTTGCACAGTCAGTAAAGTCCTTGCTAGAAGCACAGAAACAGTCCATTGAGTCTGGCTCCATAGCAGGCGGGGAGCACCTCTGTTTTATGGGCAGTGGCAGAGAGGAAGAAGACATGTACATGAACATGGTCCTCGCACACTTCTTACAGAAAAACAAAGAATATGTTAGCATTGCCAGTGGAGGATTTATGGCCCTTCAGCAGCACCTGGCAGACATAAATGTAGAGGGACCAGAAAGTGGATACGGCCATTGGATTGCCAGTACCTCAGGGTCAAGGGGCAGCATCAGCTCTGTCGATGGTGAATCCTGTAATGGCTCCAATGATAGAGGAATGAAATCCCTGGTCAGTAAAATGACTGTGGCTCTAAAGACAAAATCCGTTACCGTTAGGGAAAAGGTCATCAGCTTTATTGAGAACTCGTCGACTCCTGTGGACCGGCACGTGAGCAGCAGCGACAGAGTGGGCAAGCCTTACCGTGGAGTGAAGCCTGTGTTCAGCATCGGCGATGAAGAGGAATATGACACAGATGAAATCGACAGCTCGTCCATGTCAGATGATGATAGGAAAGAGGTTGTCAACATCCAGACCTGGATCAACAAGCCGGACATCAAGCATCACTTTCCCTGTAAAGAAGTTAAAGAAAGTGGACATATGTTTCCTAGCCATCTGCTGGTTACCGCCACCCATATGTACTGCTTAAGGGAGATTCTTTCAAGGAAAGGCCTGGCTTACATCCAGTCTCGGCAAGCACTAAATTCTGTAGTGAAAATTACGTCCAAAAAAAAACATCCCGAGCTAATTACCTTCAAGTATGGAAACAGCAGTGCTTCCGGGATAGAAATCTTGGCTATTGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAACAGCAGTGCTTCCG
59.42
AAGAAGCTGGCGTCTTACTACA
59.44
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAACAGCAGTGCTTCCGG
61.86
AAGAAGCTGGCGTCTTACTACA
59.44
140
PCR template sequence:
CTGTAGTGAAAATTACGTCCAAAAAAAAACATCCCGAGCTAATTACCTTCAAGTATGGAAACAGCAGTGCTTCCGGGATAGAAATCTTGGCTATTGAAAGGCTTTTTGGAAAGTACCCCGGCCAGCCTGAATCTGGAAGACATAGAAGACCTGTTCTCTTTGGCTCAGTATTACTGTAGTAAGACGCCAGCTTCTTTTAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-221-3p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGCTATTGAAAGGCTTTTTGGAAAG
siRNA sets
AAAAGCCTTTCAATAGCCA, TTTCCAAAAAGCCTTTCAA, CAAAAAGCCTTTCAATAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTBC1D23_1201_ORF_1
0.9558
0.20155684
0.985655623
960
ORF sequence:
ATGCTCCAGAATCCATCTGAGTTTGCACAGTCAGTAAAGTCCTTGCTAGAAGCACAGAAACAGTCCATTGAGTCTGGCTCCATAGCAGGCGGGGAGCACCTCTGTTTTATGGGCAGTGGCAGAGAGGAAGAAGACATGTACATGAACATGGTCCTCGCACACTTCTTACAGAAAAACAAAGAATATGTTAGCATTGCCAGTGGAGGATTTATGGCCCTTCAGCAGCACCTGGCAGACATAAATGTAGAGGGACCAGAAAGTGGATACGGCCATTGGATTGCCAGTACCTCAGGGTCAAGGGGCAGCATCAGCTCTGTCGATGGTGAATCCTGTAATGGCTCCAATGATAGAGGAATGAAATCCCTGGTCAGTAAAATGACTGTGGCTCTAAAGACAAAATCCGTTACCGTTAGGGAAAAGGTCATCAGCTTTATTGAGAACTCGTCGACTCCTGTGGACCGGCACGTGAGCAGCAGCGACAGAGTGGGCAAGCCTTACCGTGGAGTGAAGCCTGTGTTCAGCATCGGCGATGAAGAGGAATATGACACAGATGAAATCGACAGCTCGTCCATGTCAGATGATGATAGGAAAGAGGTTGTCAACATCCAGACCTGGATCAACAAGCCGGACATCAAGCATCACTTTCCCTGTAAAGAAGTTAAAGAAAGTGGACATATGTTTCCTAGCCATCTGCTGGTTACCGCCACCCATATGTACTGCTTAAGGGAGATTCTTTCAAGGAAAGGCCTGGCTTACATCCAGTCTCGGCAAGCACTAAATTCTGTAGTGAAAATTACGTCCAAAAAAAAACATCCCGAGCTAATTACCTTCAAGTATGGAAACAGCAGTGCTTCCGGGATAGAAATCTTGGCTATTGAAAGGCTTTTTGGAAAGTACCCCGGCCAGCCTGAATCTGGAAGACATAGAAGACCTGTTCTCTTTGGCTCAGTATTACTGTAG
Peptide sequence:
MLQNPSEFAQSVKSLLEAQKQSIESGSIAGGEHLCFMGSGREEEDMYMNMVLAHFLQKNKEYVSIASGGFMALQQHLADINVEGPESGYGHWIASTSGSRGSISSVDGESCNGSNDRGMKSLVSKMTVALKTKSVTVREKVISFIENSSTPVDRHVSSSDRVGKPYRGVKPVFSIGDEEEYDTDEIDSSSMSDDDRKEVVNIQTWINKPDIKHHFPCKEVKESGHMFPSHLLVTATHMYCLREILSRKGLAYIQSRQALNSVVKITSKKKHPELITFKYGNSSASGIEILAIERLFGKYPGQPESGRHRRPVLFGSVLL
IRESfinder result
IRESfinder score
0.509042658
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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