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mmu_ciBicd1_1207
Basic information of circular RNA
PanCircBase ID:
mmu_ciBicd1_1207
mm39_Chr. Position ID:
chr6|149420611|149421818|+
Gene name:
Bicd1
Transcript:
ENSMUST00000086829.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
1207
Exon/intron sizes in nt:
1207
Flanking exon/introns:
chr6:149420611-149451847
Splice length:
1207
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTGGGGAGGCGCCAGACACCGTGCCTACCATAGACACTTACCTCCTGCATAGTCAGGGCCCACAGATCCCTACCATTCGGGTCAGCAGTGGCACTCAGAGGAAAAGGTATGCATGCAGCTATTGTCATAGTGTGGTACAGTGCACAGGCTTTAGTTGATTGTAAAAAATTATGTGCTTTTACTGTGTAGAATGGAGAAAAGAAAAGAAAAAGGAAAAAAATTAAAGCTGTTAAGAGCTTTGCTAATGCTGGTCTTTCTGCCACCCCATCCACACATACTGATTAACCATAACATAATTTTCAACATCTGTTAATGTTTTTGCTGCTGTTTGTGTGCATAAATATGTCTCTTCCTAGCCTCCAACCTAAAAATGGATAAAGTGGATATTAAAAATGAATATCAGTGAACATGGACTGTAACCATATCTCTGGAAATTATGCTTTTGTCATTTTTTATGTAATTGGGCAAAGATATGAGTTTGTTCTCTTAGGGAACACTTGTCCATAAGACTAAACGTGATGACTAATTGAAAGGTCGTGGTTATATTTCATAAAATGGAATAGAATATGTATAGTCCTTTTCTTAAAAGCAAGTTTTTGTGCCTTTTTTCATTGGTCAGGTTAGTATTGCTCAAAAACCACTTTTAAGGATTTTAGTGACTTGACCTTGTGACCTCTTACCAAGTTCTTTTTTTTTTTTTTAATATTTTTAAAGATTCATTTATTTATTATATGTAAGTACACTGTAGCTGTCTTCAGACAATCCAGAAGAGGGAGTCAGATCTTGTTATGGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCTGAACCTTCGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCTCTTACCAAGTTCTGGTTGTTGAGTTACTTGCCCTGTTTTTAGTTACTATAGTTAAAGTTGTTCATTTGAGGAGCTTTCATTTAAGAATCAAATAATACATATATTTTCTATTTGTGGTTCAAAATGTCTATAATAAACTTCTATTCCAGTATTCAGAGTAGTTTTCAAAAAAGGGTTGTATCCTGATATGAAAACTAAAGAATTACCAAAAAAAACCTTGATTTTTCATATTTAAAAGATAATTAAATGCCAATATAACTAATGTTGTCATTGGTGAGGTGCTGAAAGGTAATTAAAGTCAAACTTTTTTGTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCATTGGTGAGGTGCTGA
59.24
CCACTGCTGACCCGAATGG
60.75
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGGTGAGGTGCTGAAAGGT
59.45
GCCACTGCTGACCCGAAT
60.05
140
PCR template sequence:
ACCTTGATTTTTCATATTTAAAAGATAATTAAATGCCAATATAACTAATGTTGTCATTGGTGAGGTGCTGAAAGGTAATTAAAGTCAAACTTTTTTGTTTGTAAGTGGGGAGGCGCCAGACACCGTGCCTACCATAGACACTTACCTCCTGCATAGTCAGGGCCCACAGATCCCTACCATTCGGGTCAGCAGTGGCACTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-16-5p(1), mmu-miR-200b-3p(1), mmu-miR-138-5p(1), mmu-miR-139-5p(1), mmu-miR-24-3p(1), mmu-miR-503-5p(1), mmu-miR-434-3p(1), mmu-miR-224-5p(1), mmu-miR-410-3p(1), mmu-miR-344d-3p(1), mmu-miR-296-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACTTTTTTGTTTGTAAGTGGGGAGG
siRNA sets
NA
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
0.893797464
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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