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mmu_ciFbh1_3843
Basic information of circular RNA
PanCircBase ID:
mmu_ciFbh1_3843
mm39_Chr. Position ID:
chr2|11756608|11760451|-
Gene name:
Fbh1
Transcript:
ENSMUST00000071564.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
13
Exon/intron offsets:
0
Genomic length:
3843
Exon/intron sizes in nt:
3843
Flanking exon/introns:
chr2:11756577-11760451
Splice length:
3843
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGAGCCTGTCCTCCTCCTCGGGCCCAGAGCAGATAAGCAAGCGTTCTGTCTCCTTCCTAGTCCTTACTGTGCCAGCACTGTGGGAGATATAGTTTGTTCTCCACAAACAACAGCTTAGTCACAGATGGTCACAGATAAAGCCACAGGTCATTCATGTTGCTTTGGTTTTTCCAGCCTTAGCATTGTATACTGTCAGACTTAACCTTGATTTTAATGACAGTGACAATTTTAGAAGTACTGGTCAAGTAGTTCTGGTATGTCTGTGTGCTGAGACTTGTCAAGTGCTTTTTCTCAAATTAGACAAGTACGGAAGAGCCATCTGTCTCAGGGTTTCCAGGGTATGTGTTATCAATATGCAGTGTGACTGGATGCACTCAGGGTCCTCCACTGCCAAGCCCCCCTCCACACACACACTGGGGAGTGGGGGAGAGGTGTTACAAACATCTGTATACATTATTTGGAGTTATGTAAAAGAGATTCATTTCTTCTCTTGCATACACGATAGCTTGAGGCTGCTTCCTTTTTAGTCATGTATGAATTATTTTACAAATAATTTAATCATGGTTCATTCTGAATAGATTATAGCAGCAAAGTCCTGTTGAAAGTCATGTTTTTCTCCTATTAGTTGCAGCTGTGTGACATAGTTCATGATTTAGATATAGACATCGTTGATGAACTAGCTGCGCTGTTCATGAAATAGGCAACTTTATTGCTATTCACTAAAGTATACCTTGCTTGGGGAAAGAAATGGATAATGGAAGTTTGGAATCTTTCCAGCAGAGGTGGTTGTCTTAGTCAGGGTTTCTATTCCTGCACAAACATCATGACCAAGAAGCATGGGAGGAAAGGGTTTATTCGGCTTACACTTCCATACTGCTGTTCATCACCAAAGGAAGTCAGGACTGGAACTCAAGCAGGTCAGAAAGCAGGAGCTGATGCAGAAGCCATGGAGGGATGTTCTTTACTGGCTTGCTTCCCCTGGCTTGCTCAATCTGCTCTCTTATAGAACCAAGATTACCAGCCCAGAGATGGTCCCACCCACAAAGGGCTTTTCCCCCTTGATGAAAATGCCTTACAGTTGGATCTCATGGAGGCATTTCCCCAACTGAAGCTCCTTTCTCTGTGATAACTCCAGCTGTGTCAAGTTGACACGAAACTAGCCAGTATAATTGACCCCTTGTCAACTTGACACACAAACACATCACTAGTAAGCCTCAACCCTTACAGTCTTATTCATCCCCAAGATCTAAATAACTTTAAGCGTCCCACAGTCTTTACATATTCTTAAATTTTCAATCTCTTTAAAATATCCATCTCTTTTAAAATCCAAAGTCTTGTTACAATTAAAAGTCTCTTAACTGTGGGCTCCACTAAAATAGTTTTTTTTTTCCTTCAAGAGGGAAATATCAGGGCAGAGTCACAATCAAAAGCAAAAATCAGTCTCCAACCATCCAATGTCTGGGATCCAACTCACGATCTTCTGGGCTCCTCCAAGGGCTTGGGTCACTTCTCCAGCCATGCCCTTTGTATCACACGTATAGTCCTCTAGGACGTGTAGTCCTCTGCCTGTACTCCACTCCCCCTGCTGCTCTTGGTGGTCATCTCATGGTACTGACATCTCCAAAACACTGCATGACCCCTTCAGTCCTGGGCCGTTGATTGCAACTGAGGCTGCACCTTCACCAATGGCCTTCCATGGCCTCTCACAGTGCCGAGCCTCAGCTGCTCTGAGTGACCCCTTCATGCCCTCAAAACCAGTACTACCTGGGTGACTCTTCCACATTACCAAGTCCCGCTGCAGCAGGAGTACAACCTTGGCTATCTCTGGAACACAGCCTCTTTGTGCTTTCAGAAAACACTTCCCAGAAGATGTCACCTCAATGATGCTGGTCTCTTCTTAATCACCACTAATTTATTAGCCCCAGCTAACCAGCATCAATAGTCCCAGTAATGCAAAGGTTTTGCTTTAGTAGTTCTGGAATCTTGTTAATCACACCTGATTCTTCAGCCCCAGCTAACCAGAACCACAGAATAATCAGACTCCAAAATAGCAATGGCCCTGAAAAGAGTCTTTAATTTTCCCTCTGAAATTTCACAAGCCGGGCCTCCATCTTCTGCAATGTTCTCAACATTATCTTCCAAGCTCCTACACAACATCTGACAGAGCTCTTAACAACGAATGGATCTTCTGGCCCAAAGTTCCAAAGTCCTTCCACAGTCCTCCCCAAAACATGGTCAGGTTGTCACAGGAATACCTAACTATGCTGGTACCAATTTGTCTTAGTCAGGGTTTCTATTCCATACTGCTGTTCATCACCAAAGGAAGTCAGGACTGGAACTCAAACAGGTCAGGAAGCAGGAGCTGATGCAGAGGCCACGGAGGGATGTTTTTTACTGGCTTGCTTCCCCTGGCTTGCTCAGCCTGCTCTCTTATAGAACCAAGACTACCAGCCCAGAGATGGTCCCACCCACAAGGGGCCTTTCCCCCTTGATCACTAATTGAGAAAATGCCTTACAGTTGGATCTCATGGAGGCATTTCCCCAACTGAAGCTCCTTTTTCTGTGATAACTCCAGCTGTGTCAAGTTGACACACAAACCCAGCCAGTACAGTGGTCAAGAAAATATGGTCTTGGGCTGAGTGTTGAAGGATAGGAACATATTCGGGTAGATGAGAGAGTGATGGGAACAGCATGGGCCAAGGCAGAGAAACATGGCGATTGTCCATGGTGGCTTTTGTTTTCAGAAAGGAACTCCCTGTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTGTCTGTCTGTCTGTCTGTCTGTCTCACACGCTGGCTTTGAACCCACAGTCCTCCAGCCTCAACCTTGACTGCTAAGGATTGTGGGCATGCACCACCACACCTGACTTAAAAGTGTTCCTGTTTTTCTTTTTGTGTTATTCGGGATTGAGCAAGGCTTGTCAAACAGGCACTCTATGTGTGCTCTGGATCCCCAGCCTAAAAATCCTCATGTGACAAACAGGTGATAAATTGATGTTGGAAGAGGTCTTAGAGGCTAGGGCAAAATCTCTGCGCTCTCTTCACGTTTGCATAATTTAAAACCCACAAGATGTGACTTGAGAAAGGGCTGAGGGGAGATTTTCTTAAAAGAAGTTAGCAGTTGCTGTTGGAGTGTCATTGCAGAGAAGCGCTATTCAGAGAGTGGAGGATCCTTAGAGCAGGGCATTTCCTCCTCTCTGTATTATACTTCTCTTTCACAGCAGGAGAGCAGTTAATTAAAATGTTTGGGCAAGATTAATGTGACAGAGGGAGACAGAATTGAGTGTGAGGACAGAAGTCGGGTCACATAGGTGAGACAAGAAGCTGAAGACAGTGGTAAGAAAGGGAAATGATGGGTGTGTGGGTGTGTGGTGGGGGGCGACCCGGGTGATAAACTGTTCAGGGTTCCAATGTAGAAAATCCTAAGAGTGGGGCTAGAAAGATGGCTCAGAGGTGAAGAACAAGTGCTTGGTGCTCTTGCAGGGAACTCCAGTTCCGACTCCAGCACCCATGTTAGGTCTCAGCCGCCTGTAACACCAGCTCCAGGAGGGTCTGCTGCCTTTTCTTCTGTGGATGACACTGTGTTAACATACGCACACCTGCTCACATAGCCACAAACACATACCTAATTAAAAATAGTAAAAATAAGTCTTTTCTTAAAAGGAGAAAATGCTGCTGTTAATAGAAACAGTAATTTTTCCTTTGTCAGGCTCCTGTTTGTGTCCAAGTGTCTTTGGAAGTCTCACGTCCTTTTCCCAGGAGGCATTGGCAGTGACAGAAGTGAGCTCACATATCACTGGGCAGGTGGCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCATTGGCAGTGACAGAA
59.89
ATATCTCCCACAGTGCTGGC
59.53
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGCATTGGCAGTGACAGA
60.32
ATATCTCCCACAGTGCTGGC
59.53
144
PCR template sequence:
CTCCTGTTTGTGTCCAAGTGTCTTTGGAAGTCTCACGTCCTTTTCCCAGGAGGCATTGGCAGTGACAGAAGTGAGCTCACATATCACTGGGCAGGTGGCTGTAAGAGCCTGTCCTCCTCCTCGGGCCCAGAGCAGATAAGCAAGCGTTCTGTCTCCTTCCTAGTCCTTACTGTGCCAGCACTGTGGGAGATATAGTTTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
34
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(2), mmu-miR-370-3p(2), mmu-miR-210-3p(1), mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-34c-5p(1), mmu-let-7c-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-322-5p(1), mmu-miR-335-5p(1), mmu-miR-18a-5p(1), mmu-miR-298-5p(1), mmu-miR-326-3p(1), mmu-miR-125b-5p(1), mmu-miR-138-5p(1), mmu-miR-125a-5p(1), mmu-miR-382-5p(1), mmu-miR-758-3p(1), mmu-miR-466d-3p(1), mmu-miR-98-5p(1), mmu-miR-499-5p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-1198-5p(1), mmu-miR-300-3p(1), mmu-miR-369-3p(1), mmu-miR-188-3p(1), mmu-miR-466b-3p(1), mmu-miR-670-5p(1), mmu-miR-574-5p(1), mmu-miR-296-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGGCAGGTGGCTGTAAGAGCCTGTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIFBH1_3843_ORF_5
0.6714
-0.112173549
0.03442815
180
ORF sequence:
ATGCTGCTGTTAATAGAAACAGTAATTTTTCCTTTGTCAGGCTCCTGTTTGTGTCCAAGTGTCTTTGGAAGTCTCACGTCCTTTTCCCAGGAGGCATTGGCAGTGACAGAAGTGAGCTCACATATCACTGGGCAGGTGGCTGTAAGAGCCTGTCCTCCTCCTCGGGCCCAGAGCAGATAA
Peptide sequence:
MLLLIETVIFPLSGSCLCPSVFGSLTSFSQEALAVTEVSSHITGQVAVRACPPPRAQSR
IRESfinder result
IRESfinder score
0.791963567
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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