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mmu_circFh1_360
Basic information of circular RNA
PanCircBase ID:
mmu_circFh1_360
mm39_Chr. Position ID:
chr1|175439712|175442479|-
Gene name:
Fh1
Transcript:
ENSMUST00000027810.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,2590
Genomic length:
2767
Exon/intron sizes in nt:
1,83,177
Flanking exon/introns:
chr1:175437368-175439712|chr1:175442479-175444094
Splice length:
360
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGCTGAAGGTAAATTAAATGATCACTTTCCTCTGGTGGTTTGGCAGACTGGATCAGGAACCCAGACAAACATGAATGTAAATGAAGTCATTAGCAACAGAGCAATTGAAATGTTAGGAGGTGAACTTGGCAGCAAGAAGCCTGTGCACCCCAATGATCATGTTAACAAAAGCCAGAGCTCGAATGACACCTTTCCCACAGCAATGCATATTGCTGCTGCAGTGGAAGTTCACAAGGTCCTGTTGCCAGGGTTACAGAAGCTCCATGATGCTCTCAGTGCAAAATCCAAAGAGTTTGCGCAGGTCATCAAAATTGGGCGAACTCACACGCAGGATGCTGTCCCTCTTACTCTTGGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCCAAAGAGTTTGCGCAGG
59.12
GGGTTCCTGATCCAGTCTGC
60.11
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCATGATGCTCTCAGTGCA
59.09
GGTTCCTGATCCAGTCTGCC
60.11
161
PCR template sequence:
GCTCCATGATGCTCTCAGTGCAAAATCCAAAGAGTTTGCGCAGGTCATCAAAATTGGGCGAACTCACACGCAGGATGCTGTCCCTCTTACTCTTGGACAGGTAGCTGAAGGTAAATTAAATGATCACTTTCCTCTGGTGGTTTGGCAGACTGGATCAGGAACCCAGACAAACATGAATGTAAATGAAGTCATTAGCAACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-181a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-33-5p(1), mmu-miR-181b-5p(1), mmu-miR-5101(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TACTCTTGGACAGGTAGCTGAAGGTA
siRNA sets
TACCTTCAGCTACCTGTCC, ACCTTCAGCTACCTGTCCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFH1_360_ORF_1
1.1318
0.162185855
0.898812358
648
ORF sequence:
ATGAATGTAAATGAAGTCATTAGCAACAGAGCAATTGAAATGTTAGGAGGTGAACTTGGCAGCAAGAAGCCTGTGCACCCCAATGATCATGTTAACAAAAGCCAGAGCTCGAATGACACCTTTCCCACAGCAATGCATATTGCTGCTGCAGTGGAAGTTCACAAGGTCCTGTTGCCAGGGTTACAGAAGCTCCATGATGCTCTCAGTGCAAAATCCAAAGAGTTTGCGCAGGTCATCAAAATTGGGCGAACTCACACGCAGGATGCTGTCCCTCTTACTCTTGGACAGGTAGCTGAAGGTAAATTAAATGATCACTTTCCTCTGGTGGTTTGGCAGACTGGATCAGGAACCCAGACAAACATGAATGTAAATGAAGTCATTAGCAACAGAGCAATTGAAATGTTAGGAGGTGAACTTGGCAGCAAGAAGCCTGTGCACCCCAATGATCATGTTAACAAAAGCCAGAGCTCGAATGACACCTTTCCCACAGCAATGCATATTGCTGCTGCAGTGGAAGTTCACAAGGTCCTGTTGCCAGGGTTACAGAAGCTCCATGATGCTCTCAGTGCAAAATCCAAAGAGTTTGCGCAGGTCATCAAAATTGGGCGAACTCACACGCAGGATGCTGTCCCTCTTACTCTTGGACAG
Peptide sequence:
MNVNEVISNRAIEMLGGELGSKKPVHPNDHVNKSQSSNDTFPTAMHIAAAVEVHKVLLPGLQKLHDALSAKSKEFAQVIKIGRTHTQDAVPLTLGQVAEGKLNDHFPLVVWQTGSGTQTNMNVNEVISNRAIEMLGGELGSKKPVHPNDHVNKSQSSNDTFPTAMHIAAAVEVHKVLLPGLQKLHDALSAKSKEFAQVIKIGRTHTQDAVPLTLGQ
IRESfinder result
IRESfinder score
0.507432079
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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