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mmu_circFh1_976
Basic information of circular RNA
PanCircBase ID:
mmu_circFh1_976
mm39_Chr. Position ID:
chr1|175435382|175446751|-
Gene name:
Fh1
Transcript:
ENSMUST00000027810.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,1820,4330,6920,8712,11234
Genomic length:
11369
Exon/intron sizes in nt:
2,04,16,61,83,17,71,11,000
Flanking exon/introns:
chr1:175433748-175435382|chr1:175446751-175453016
Splice length:
976
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_110884
Human Ortholog IDs:
Mature spliced Sequence:
GCAAGCCAAAATTCCTTCCGTGTAGAGTTCGACACCTTTGGTGAATTGAAGGTTCCAACCGATAAGTATTATGGTGCTCAGACCGTAAGATCTACGATGAACTTTAAGATTGGAGGTGCTACGGAACGTATGCCAATCCCAGTCATTCAAGCTTTCGGCATCTTGAAGCGAGCTGCTGCTGAAGTAAACCAGGAGTATGGTCTCGATCCAAAGATTGCTAGTGCAATAATGAAGGCCGCAGATGAGGTAGCTGAAGGTAAATTAAATGATCACTTTCCTCTGGTGGTTTGGCAGACTGGATCAGGAACCCAGACAAACATGAATGTAAATGAAGTCATTAGCAACAGAGCAATTGAAATGTTAGGAGGTGAACTTGGCAGCAAGAAGCCTGTGCACCCCAATGATCATGTTAACAAAAGCCAGAGCTCGAATGACACCTTTCCCACAGCAATGCATATTGCTGCTGCAGTGGAAGTTCACAAGGTCCTGTTGCCAGGGTTACAGAAGCTCCATGATGCTCTCAGTGCAAAATCCAAAGAGTTTGCGCAGGTCATCAAAATTGGGCGAACTCACACGCAGGATGCTGTCCCTCTTACTCTTGGACAGGAATTCAGTGGTTACGTTCAGCAAGTCCAGTATGCGATGGTGAGAATAAAAGCCGCCATGCCAAGAATCTACGAGCTCGCTGCTGGAGGCACTGCTGTGGGGACGGGGTTAAACACCAGGATCGGTTTCGCAGAAAAGGTGGCCGCAAAAGTAGCAGCACTCACAGGTTTGCCTTTTGTCACTGCCCCGAATAAGTTTGAAGCTCTGGCTGCTCATGATGCTCTGGTTGAGCTTAGTGGAGCCATGAACACTGCCGCCTGCAGTCTAATGAAGATAGCGAATGATATTCGCTTCCTGGGTTCTGGTCCTCGGTCAGGTTTGGGAGAGCTGATCTTGCCTGAAAACGAGCCAGGGAGCAGCATCATGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCGCTTCCTGGGTTCTGG
60.04
GATCTTACGGTCTGAGCACCA
59.52
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCGCTTCCTGGGTTCTGG
60.04
TCTTACGGTCTGAGCACCAT
58.44
175
PCR template sequence:
AAGATAGCGAATGATATTCGCTTCCTGGGTTCTGGTCCTCGGTCAGGTTTGGGAGAGCTGATCTTGCCTGAAAACGAGCCAGGGAGCAGCATCATGCCAGGCAAGCCAAAATTCCTTCCGTGTAGAGTTCGACACCTTTGGTGAATTGAAGGTTCCAACCGATAAGTATTATGGTGCTCAGACCGTAAGATCTACGATGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
23
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(2), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-181a-5p(1), mmu-miR-150-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-31-5p(1), mmu-miR-205-5p(1), mmu-miR-15b-5p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-33-5p(1), mmu-miR-25-3p(1), mmu-miR-181b-5p(1), mmu-miR-503-5p(1), mmu-miR-149-5p(1), mmu-miR-363-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-34b-5p(1), mmu-miR-5101(1), mmu-miR-369-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCATCATGCCAGGCAAGCCAAAATT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFH1_976_ORF_1
1.0886
0.202584402
0.985682461
924
ORF sequence:
ATGAACTTTAAGATTGGAGGTGCTACGGAACGTATGCCAATCCCAGTCATTCAAGCTTTCGGCATCTTGAAGCGAGCTGCTGCTGAAGTAAACCAGGAGTATGGTCTCGATCCAAAGATTGCTAGTGCAATAATGAAGGCCGCAGATGAGGTAGCTGAAGGTAAATTAAATGATCACTTTCCTCTGGTGGTTTGGCAGACTGGATCAGGAACCCAGACAAACATGAATGTAAATGAAGTCATTAGCAACAGAGCAATTGAAATGTTAGGAGGTGAACTTGGCAGCAAGAAGCCTGTGCACCCCAATGATCATGTTAACAAAAGCCAGAGCTCGAATGACACCTTTCCCACAGCAATGCATATTGCTGCTGCAGTGGAAGTTCACAAGGTCCTGTTGCCAGGGTTACAGAAGCTCCATGATGCTCTCAGTGCAAAATCCAAAGAGTTTGCGCAGGTCATCAAAATTGGGCGAACTCACACGCAGGATGCTGTCCCTCTTACTCTTGGACAGGAATTCAGTGGTTACGTTCAGCAAGTCCAGTATGCGATGGTGAGAATAAAAGCCGCCATGCCAAGAATCTACGAGCTCGCTGCTGGAGGCACTGCTGTGGGGACGGGGTTAAACACCAGGATCGGTTTCGCAGAAAAGGTGGCCGCAAAAGTAGCAGCACTCACAGGTTTGCCTTTTGTCACTGCCCCGAATAAGTTTGAAGCTCTGGCTGCTCATGATGCTCTGGTTGAGCTTAGTGGAGCCATGAACACTGCCGCCTGCAGTCTAATGAAGATAGCGAATGATATTCGCTTCCTGGGTTCTGGTCCTCGGTCAGGTTTGGGAGAGCTGATCTTGCCTGAAAACGAGCCAGGGAGCAGCATCATGCCAGGCAAGCCAAAATTCCTTCCGTGTAGAGTTCGACACCTTTGGTGA
Peptide sequence:
MNFKIGGATERMPIPVIQAFGILKRAAAEVNQEYGLDPKIASAIMKAADEVAEGKLNDHFPLVVWQTGSGTQTNMNVNEVISNRAIEMLGGELGSKKPVHPNDHVNKSQSSNDTFPTAMHIAAAVEVHKVLLPGLQKLHDALSAKSKEFAQVIKIGRTHTQDAVPLTLGQEFSGYVQQVQYAMVRIKAAMPRIYELAAGGTAVGTGLNTRIGFAEKVAAKVAALTGLPFVTAPNKFEALAAHDALVELSGAMNTAACSLMKIANDIRFLGSGPRSGLGELILPENEPGSSIMPGKPKFLPCRVRHLW
IRESfinder result
IRESfinder score
0.385592949
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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