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mmu_circTbc1d23_686
Basic information of circular RNA
PanCircBase ID:
mmu_circTbc1d23_686
mm39_Chr. Position ID:
chr16|56993386|57009795|-
Gene name:
Tbc1d23
Transcript:
ENSMUST00000023431.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
16,15,14,13,12,11
Exon/intron offsets:
0,4908,9827,11356,13614,16238
Genomic length:
16409
Exon/intron sizes in nt:
1,36,89,14,01,07,43,170
Flanking exon/introns:
chr16:56992180-56993386|chr16:57009795-57011836
Splice length:
686
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATGCTCCAGAATCCATCTGAGTTTGCACAGTCAGTAAAGTCCTTGCTAGAAGCACAGAAACAGTCCATTGAGTCTGGCTCCATAGCAGGCGGGGAGCACCTCTGTTTTATGGGCAGTGGCAGAGAGGAAGAAGACATGTACATGAACATGGTCCTCGCACACTTCTTACAGAAAAACAAAGAATATGTTAGCATTGCCAGTGGAGGATTTATGGCCCTTCAGCAGCACCTGGCAGACATAAATGTAGAGGGACCAGAAAGTGGATACGGCCATTGGATTGCCAGTACCTCAGGGTCAAGGGGCAGCATCAGCTCTGTCGATGGTGAATCCTGTAATGGCTCCAATGATAGAGGAATGAAATCCCTGGTCAGTAAAATGACTGTGGCTCTAAAGACAAAATCCGTTACCGTTAGGGAAAAGGTCATCAGCTTTATTGAGAACTCGTCGACTCCTGTGGACCGGCACGTGAGCAGCAGCGACAGAGTGGGCAAGCCTTACCGTGGAGTGAAGCCTGTGTTCAGCATCGGCGATGAAGAGGAATATGACACAGATGAAATCGACAGCTCGTCCATGTCAGATGATGATAGGAAAGAGGTTGTCAACATCCAGACCTGGATCAACAAGCCGGACATCAAGCATCACTTTCCCTGTAAAGAAGTTAAAGAAAGTGGACATATGTTTCCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCCGGACATCAAGCATCA
60.04
GAGCCAGACTCAATGGACTGT
59.72
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGACCTGGATCAACAAGCCG
60.04
GAGCCAGACTCAATGGACTGT
59.72
159
PCR template sequence:
GGAAAGAGGTTGTCAACATCCAGACCTGGATCAACAAGCCGGACATCAAGCATCACTTTCCCTGTAAAGAAGTTAAAGAAAGTGGACATATGTTTCCTAGATGCTCCAGAATCCATCTGAGTTTGCACAGTCAGTAAAGTCCTTGCTAGAAGCACAGAAACAGTCCATTGAGTCTGGCTCCATAGCAGGCGGGGAGCACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-221-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATATGTTTCCTAGATGCTCCAGAATC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTBC1D23_686_ORF_1
0.8607
0.24811314
0.9280577
723
ORF sequence:
ATGCTCCAGAATCCATCTGAGTTTGCACAGTCAGTAAAGTCCTTGCTAGAAGCACAGAAACAGTCCATTGAGTCTGGCTCCATAGCAGGCGGGGAGCACCTCTGTTTTATGGGCAGTGGCAGAGAGGAAGAAGACATGTACATGAACATGGTCCTCGCACACTTCTTACAGAAAAACAAAGAATATGTTAGCATTGCCAGTGGAGGATTTATGGCCCTTCAGCAGCACCTGGCAGACATAAATGTAGAGGGACCAGAAAGTGGATACGGCCATTGGATTGCCAGTACCTCAGGGTCAAGGGGCAGCATCAGCTCTGTCGATGGTGAATCCTGTAATGGCTCCAATGATAGAGGAATGAAATCCCTGGTCAGTAAAATGACTGTGGCTCTAAAGACAAAATCCGTTACCGTTAGGGAAAAGGTCATCAGCTTTATTGAGAACTCGTCGACTCCTGTGGACCGGCACGTGAGCAGCAGCGACAGAGTGGGCAAGCCTTACCGTGGAGTGAAGCCTGTGTTCAGCATCGGCGATGAAGAGGAATATGACACAGATGAAATCGACAGCTCGTCCATGTCAGATGATGATAGGAAAGAGGTTGTCAACATCCAGACCTGGATCAACAAGCCGGACATCAAGCATCACTTTCCCTGTAAAGAAGTTAAAGAAAGTGGACATATGTTTCCTAGATGCTCCAGAATCCATCTGAGTTTGCACAGTCAGTAA
Peptide sequence:
MLQNPSEFAQSVKSLLEAQKQSIESGSIAGGEHLCFMGSGREEEDMYMNMVLAHFLQKNKEYVSIASGGFMALQQHLADINVEGPESGYGHWIASTSGSRGSISSVDGESCNGSNDRGMKSLVSKMTVALKTKSVTVREKVISFIENSSTPVDRHVSSSDRVGKPYRGVKPVFSIGDEEEYDTDEIDSSSMSDDDRKEVVNIQTWINKPDIKHHFPCKEVKESGHMFPRCSRIHLSLHSQ
IRESfinder result
IRESfinder score
0.451846762
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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