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mmu_ciGtf2b_1532
Basic information of circular RNA
PanCircBase ID:
mmu_ciGtf2b_1532
mm39_Chr. Position ID:
chr3|142487382|142488914|+
Gene name:
Gtf2b
Transcript:
ENSMUST00000029938.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
1532
Exon/intron sizes in nt:
1532
Flanking exon/introns:
chr3:142487382-142488956
Splice length:
1532
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGAGCTTCATCAGGACATCAGCCAATGAGATGGCAAGGCTGGGAGTGTAGTGGTCTTACTCATAATCTCCCATGGAAAGGGTTAACTATTCAGATCCTTGAAGAAGCATTAACTCATAAGGAGGAAGGATTGGACAGAGTCCTCTTCACCAAGAGATTATTTGCTTAGTGTGCTTGAGAGCCTGGTTTTCATTCCTAGCCTCACAACAAAACAATACCTCAAGAAAGTACAGTAGCTTGCTTATAGTGGTTATTTAGAGGTATACAGCCTGTGTGCAAGGCTCCTTTTCCAAATTAAATTGTTTAATTTTCATATGTGTCTTTTGTGAAGGGATTTACTGGAACATGCACAGCTTCTCAGTGGTTACTCTCCCTGGGTGATGCAGATATAGGCCAGATTCCACCAGATTAAAGTAGATAAAGGCAAGTTTATTAGGAAGCACCTCTCAAGTGGGTTCATCCATCTCACAGGTGGAGGTCAGTGAAGTTACACTTCCAGGCTAAAGAGGGGGTTTATGTTTAGGCAGAGTGATGACATCTCAGCTAGGATCTGGGATTGTGGTCATACATGGTCAAAAACCGAGTCCCTAGGCGGGCACTCTTGAGTGGAAATCAATGACATGTTAGCTCAGAGTTTTTTCCGTGTGGAAGTGTTTGGGGAAGGAGGAAGGATAGGTTTTCCTACCTTGAGCAGGGCTCCCTACCTAAGAGTCACGTCACCCCTTTCCCAGCCACTGTTAATTGTCAGTCATCTGTCAGGCAGGGATGGGGCCTCATAACCCTTCCCCCATTTGTGTGGTTGGTTTTTGTTTGTTTTGAGGCAAGGCCTCATCTATCCCAAGCTGGCCTCAAACTTGCCATGTAGCTGAGGATGATTTTATGCTGTGCTTGGGATAAACACAGGCTTTTTGTACATGGTGGCATATTGTCTTGGCCCTGAAACAGAGGACCTGACAAAAGTAAGTGTCTGCCACCACAGGGACACGCCTTGGGTTGCTCCACATAGAGCTGTTCTCTTAACAACAAAAATCCCTGCTGTTCAATTTTACCAAGAGACTCAGGAGTCAGATGCTGTGCTGAAAGCCTGCTAGTTCAGGGAGGTAGAGAAAGCACCCAGCTGACCTTCCTACTTCACTGATGTCCCAGAAGGAAAAGGCTCCTTCTCCACACACACTTGTCTTAAATACCTTTCCATTTATTCCTGTGCACTCCCTGCTAGTTGCTTACTTGCAGGATTGACTGAATTTAGGTAGCCCTGAGCCACACCACAGGTGGTGTTTACAGGAAACAAAGCTCTAGGGTCAAAGGCTGAGACAGAACAGTTAGAAATGGATCACAGTCTGCGTTCACAGTGGAATTAAATATCCTGCAACATATGTCTTTTAGTAGTTCTAATATACCTTTAAAGAGCCAATCACTCTTACTGTTTATATTGACTTTGACTCCTGCGTATACCTGTTATATTGTATTTCCCTTATCAATTTAAATAGTGAAATTGGAGTGTTATTTTTCCTCTTGGTATAGCAAAGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACTCCTGCGTATACCTGT
57.86
CCACTACACTCCCAGCCTTG
60.04
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACTCCTGCGTATACCTGTT
58.55
CCACTACACTCCCAGCCTTG
60.04
147
PCR template sequence:
TATTGACTTTGACTCCTGCGTATACCTGTTATATTGTATTTCCCTTATCAATTTAAATAGTGAAATTGGAGTGTTATTTTTCCTCTTGGTATAGCAAAGTGTAGGAGCTTCATCAGGACATCAGCCAATGAGATGGCAAGGCTGGGAGTGTAGTGGTCTTACTCATAATCTCCCATGGAAAGGGTTAACTATTCAGATCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-30e-5p(1), mmu-miR-138-5p(1), mmu-miR-30d-5p(1), mmu-miR-541-5p(1), mmu-miR-350-3p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGTATAGCAAAGTGTAGGAGCTTCAT
siRNA sets
TCCTACACTTTGCTATACC
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
0.814509237
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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