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mmu_circFhod3_2711
Basic information of circular RNA
PanCircBase ID:
mmu_circFhod3_2711
mm39_Chr. Position ID:
chr18|25199273|25263751|+
Gene name:
Fhod3
Transcript:
ENSMUST00000037097.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
16,17,18,19,20,21,22,23,24,25,26
Exon/intron offsets:
0,19117,23813,35309,43838,46329,47293,49482,53902,59526,64316
Genomic length:
64478
Exon/intron sizes in nt:
20,92,79,87,81,59,18,30,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr18:25193433-25199273|chr18:25263751-25265967
Splice length:
2711
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATACAAATACTTGGAGCAGTTGGCAGCCGAGACGCAGGAGAAGGAGCCTAGAAGCCAGAGCGTGAGCCGGGGTAGAGCTGACCTCTCCTTGGACCTGAGCTTGCCTGCAGCCCCTGCTCCACCTTCCCCTTCAAGCCAGAGTCCCTCTGCTGACTCACAAGAGGCTCTCCCTGTGCCTTCATCCCCACCCACTCTGCAGTGCCCCCAAGTAAGTGGTAAGGACCACGAGCCTGAACTGGAGGCAGAAGCTGGGCAAGGTGCTGATGAAGCCAGCCAGGATATAGCATCTGCCCACAGGGGAGCAGAGAGCCAAGAAGAGCCGGTGCTGGAGCTAGAGCCAGAGGAAAGAGCTTCACTGAGTGAAAAAGAGAGGCAAAACGAAGAGGTGAATGAGAGGGACAACTGTTCTGCTTCCAGCATCTCGTCCTCCAGCAGCACCTTGGAGAGGGAAGAGAAGGAAGACAAACTGTCTGAAGACAGGGCGACCGGTTTGTGGTCCACCAGCCTTCAGGATGTGGGTGTGAATGGACAGTGTGGTGACATCCTTACCAGCAAAAGGTTCATGCTGGACATGCTGTATGCCCATAACAGAAAATCCACAGAAGATGAGGAAAAAGATGACGGCGAGCCTGGGAGGTCTGCGCAGGAGGTGGAGGCAGTGGCCAGCCTCGCCACCAGGATATCCACTCTGCAGGCCAACTCTCAGGCCCCAGAGGAGAGCATCAAGAGGGTGGACATTGGCTGTCTAGACAACCGGGGCAGTGTGAAGGCATTTGCTGAGAAATTCAACAGTGGAGAAGTAGGGAGGGGTGCCATCTCTCCTGATGTGGAGTCTCAGGACAAGGTCCCGGATACACCCCCAGCACAGCTGAAGACTGAGTCTGATTACATCTGGGACCAGCTCATGGCCAATCCGAGGGAGCTCAGAATCCAAGACATGGATTTCACAGACCTAGGGGAGGAGGACGATATCGATGTTTTGGATGTGGATCTTGGCCACCGGGAAGCCCCAGGGCCACCCCCTCCACCCCCTCCCACCTTCCTGGGTTTGCCACCCCCACCCCCTCCACCCCTGTTGGACAGCGTGCCTCCCCCACCAGTCCCCGGTAATTTATTGGCTTCTCCTGTGTTCAACACTCCTCAGGGCTTAGGGTGGTCCCAGGTACCCAGGGGTCAGCCAGCGTTCACCAAGAAAAAGAAGACGATCCGGCTGTTCTGGAACGAAGTCCGGCCCTTTGAGTGGCCAAGTAAGAACAATCGCCGGTGCAGGGAATTCCTGTGGTCAAAACTGGAACCCATTAAGGTGGACACTTCCAGACTCGAGCACCTGTTTGAGTCCAAGTCTAAGGAGCTGTCTGTCACCAAGAAAACGGCTGCAGATGGTAAACGGCAGGAGATCATTGTTCTGGATTCCAAGAGGAGCAATGCCATCAACATCGGCCTGACGGTGCTGCCCCCTCCAAGGACAATTAAGATAGCCATTTTGAACTTTGATGAGTATGCCTTAAACAAAGAAGGGATCGAGAAAATTCTGACCATGATTCCAACTGAAGAGGAGAAGCAGAAAATCCAGGAGGCTCAGCTGGCTAACCCGGAAGTGCCGTTGGGCAGTGCAGAGCAGTTCCTTCTCACACTCTCTTCCATCAGTGAGCTCTCGGCTCGGCTCCACCTGTGGGCATTCAAAATGGATTATGAAACCACAGAAAAGGAAGTGGCCGAACCACTTTTGGACCTGAAGGAAGGAATAGACCAGTTGGAGAACAATAAGACTCTGGGCTTCATCCTGTCTACTCTCCTTGCCATTGGGAACTTTCTAAATGGAACTAATGCCAAAGCATTTGAGTTAAGCTACCTCGAGAAGGTTCCAGAAGTCAAAGATACAGTGCACAAGCAGTCTCTTCTCCACCACGTGTGCACCATGGTAGTGGAAAACTTTCCGGACAGCTCGGATCTGTACTCAGAGATTGGGGCCATCACTAGGTCAGCCAAGGTTGACTTTGATCAACTTCAGGATAATTTATGTCAGATGGAGAGACGCTGCAAAGCTTCATGGGACCACCTCAAGGCGATTGCAAAACACGAGATGAAGCCTGTTTTGAAACAGCGGATGTCAGAGTTCCTAAAAGACTGTGCAGAGCGAATTATAATTTTAAAGATCGTCCATCGGAGGATAATTAACAGATTTCACTCATTTTTACTGTTTATGGGCCATCCCCCTTATGCAATTCGAGAGGTGAACATCAACAAGTTCTGCAGGATCATCAGTGAGTTTGCCCTGGAGTATCGCACGACCAGGGAAAGGGTTCTACAGCAGAAACAGAAGCGGGCCAACCACAGAGAGAGAAACAAGACCAGAGGGAAGATGATCACTGACTCTGGCAAGTTCTCTGGCAGTTCTCCAGCAGCACCGAGCCAGCCACAGGGTCTGAGCTATGCTGAGGATGCAGCCGAACATGAGAACATGAAGGCCGTGTTGAAAACCTCCTCCCCTGCGCTGGAGGACGCCACCCCAGTGCTTGGTGTCCGCACTCGCAGCCGGGCAAGCCGAGGATCCACTAGTTCATGGACTATGGGAACTGAGGAGTCACCTAGTGTCACTGATGATGCGGCTGATGAGATCATGGACCGCATTGTCAAATCAGCCACCCAAGTGCCCAGTCAGAGAGTGGTGCCACGGGAGAGAAAGCGTTCCAGGGCCAACCGCAAATCTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAATCAGCCACCCAAGTGC
60.04
CTCACGCTCTGGCTTCTAGG
59.9
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAGTGCCCAGTCAGAGAG
60.04
AGGAGAGGTCAGCTCTACCC
59.74
154
PCR template sequence:
GATGAGATCATGGACCGCATTGTCAAATCAGCCACCCAAGTGCCCAGTCAGAGAGTGGTGCCACGGGAGAGAAAGCGTTCCAGGGCCAACCGCAAATCTTATACAAATACTTGGAGCAGTTGGCAGCCGAGACGCAGGAGAAGGAGCCTAGAAGCCAGAGCGTGAGCCGGGGTAGAGCTGACCTCTCCTTGGACCTGAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
26
Interacting miRNAs (#binding sites)
mmu-miR-324-3p(3), mmu-miR-149-5p(2), mmu-miR-1904(2), mmu-miR-124-3p(1), mmu-miR-103-3p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-18a-5p(1), mmu-miR-298-5p(1), mmu-miR-326-3p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-339-5p(1), mmu-miR-351-5p(1), mmu-miR-382-3p(1), mmu-miR-127-5p(1), mmu-miR-125b-1-3p(1), mmu-miR-215-5p(1), mmu-miR-107-3p(1), mmu-miR-98-5p(1), mmu-miR-705(1), mmu-miR-207(1), mmu-miR-3087-3p(1), mmu-miR-540-3p(1), mmu-miR-697(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACCGCAAATCTTATACAAATACTTG
siRNA sets
TATTTGTATAAGATTTGCG, GTATTTGTATAAGATTTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFHOD3_2711_ORF_1
1.1694
0.324183925
0.999999253
2214
ORF sequence:
ATGCTGGACATGCTGTATGCCCATAACAGAAAATCCACAGAAGATGAGGAAAAAGATGACGGCGAGCCTGGGAGGTCTGCGCAGGAGGTGGAGGCAGTGGCCAGCCTCGCCACCAGGATATCCACTCTGCAGGCCAACTCTCAGGCCCCAGAGGAGAGCATCAAGAGGGTGGACATTGGCTGTCTAGACAACCGGGGCAGTGTGAAGGCATTTGCTGAGAAATTCAACAGTGGAGAAGTAGGGAGGGGTGCCATCTCTCCTGATGTGGAGTCTCAGGACAAGGTCCCGGATACACCCCCAGCACAGCTGAAGACTGAGTCTGATTACATCTGGGACCAGCTCATGGCCAATCCGAGGGAGCTCAGAATCCAAGACATGGATTTCACAGACCTAGGGGAGGAGGACGATATCGATGTTTTGGATGTGGATCTTGGCCACCGGGAAGCCCCAGGGCCACCCCCTCCACCCCCTCCCACCTTCCTGGGTTTGCCACCCCCACCCCCTCCACCCCTGTTGGACAGCGTGCCTCCCCCACCAGTCCCCGGTAATTTATTGGCTTCTCCTGTGTTCAACACTCCTCAGGGCTTAGGGTGGTCCCAGGTACCCAGGGGTCAGCCAGCGTTCACCAAGAAAAAGAAGACGATCCGGCTGTTCTGGAACGAAGTCCGGCCCTTTGAGTGGCCAAGTAAGAACAATCGCCGGTGCAGGGAATTCCTGTGGTCAAAACTGGAACCCATTAAGGTGGACACTTCCAGACTCGAGCACCTGTTTGAGTCCAAGTCTAAGGAGCTGTCTGTCACCAAGAAAACGGCTGCAGATGGTAAACGGCAGGAGATCATTGTTCTGGATTCCAAGAGGAGCAATGCCATCAACATCGGCCTGACGGTGCTGCCCCCTCCAAGGACAATTAAGATAGCCATTTTGAACTTTGATGAGTATGCCTTAAACAAAGAAGGGATCGAGAAAATTCTGACCATGATTCCAACTGAAGAGGAGAAGCAGAAAATCCAGGAGGCTCAGCTGGCTAACCCGGAAGTGCCGTTGGGCAGTGCAGAGCAGTTCCTTCTCACACTCTCTTCCATCAGTGAGCTCTCGGCTCGGCTCCACCTGTGGGCATTCAAAATGGATTATGAAACCACAGAAAAGGAAGTGGCCGAACCACTTTTGGACCTGAAGGAAGGAATAGACCAGTTGGAGAACAATAAGACTCTGGGCTTCATCCTGTCTACTCTCCTTGCCATTGGGAACTTTCTAAATGGAACTAATGCCAAAGCATTTGAGTTAAGCTACCTCGAGAAGGTTCCAGAAGTCAAAGATACAGTGCACAAGCAGTCTCTTCTCCACCACGTGTGCACCATGGTAGTGGAAAACTTTCCGGACAGCTCGGATCTGTACTCAGAGATTGGGGCCATCACTAGGTCAGCCAAGGTTGACTTTGATCAACTTCAGGATAATTTATGTCAGATGGAGAGACGCTGCAAAGCTTCATGGGACCACCTCAAGGCGATTGCAAAACACGAGATGAAGCCTGTTTTGAAACAGCGGATGTCAGAGTTCCTAAAAGACTGTGCAGAGCGAATTATAATTTTAAAGATCGTCCATCGGAGGATAATTAACAGATTTCACTCATTTTTACTGTTTATGGGCCATCCCCCTTATGCAATTCGAGAGGTGAACATCAACAAGTTCTGCAGGATCATCAGTGAGTTTGCCCTGGAGTATCGCACGACCAGGGAAAGGGTTCTACAGCAGAAACAGAAGCGGGCCAACCACAGAGAGAGAAACAAGACCAGAGGGAAGATGATCACTGACTCTGGCAAGTTCTCTGGCAGTTCTCCAGCAGCACCGAGCCAGCCACAGGGTCTGAGCTATGCTGAGGATGCAGCCGAACATGAGAACATGAAGGCCGTGTTGAAAACCTCCTCCCCTGCGCTGGAGGACGCCACCCCAGTGCTTGGTGTCCGCACTCGCAGCCGGGCAAGCCGAGGATCCACTAGTTCATGGACTATGGGAACTGAGGAGTCACCTAGTGTCACTGATGATGCGGCTGATGAGATCATGGACCGCATTGTCAAATCAGCCACCCAAGTGCCCAGTCAGAGAGTGGTGCCACGGGAGAGAAAGCGTTCCAGGGCCAACCGCAAATCTTATACAAATACTTGGAGCAGTTGGCAGCCGAGACGCAGGAGAAGGAGCCTAGAAGCCAGAGCGTGA
Peptide sequence:
MLDMLYAHNRKSTEDEEKDDGEPGRSAQEVEAVASLATRISTLQANSQAPEESIKRVDIGCLDNRGSVKAFAEKFNSGEVGRGAISPDVESQDKVPDTPPAQLKTESDYIWDQLMANPRELRIQDMDFTDLGEEDDIDVLDVDLGHREAPGPPPPPPPTFLGLPPPPPPPLLDSVPPPPVPGNLLASPVFNTPQGLGWSQVPRGQPAFTKKKKTIRLFWNEVRPFEWPSKNNRRCREFLWSKLEPIKVDTSRLEHLFESKSKELSVTKKTAADGKRQEIIVLDSKRSNAINIGLTVLPPPRTIKIAILNFDEYALNKEGIEKILTMIPTEEEKQKIQEAQLANPEVPLGSAEQFLLTLSSISELSARLHLWAFKMDYETTEKEVAEPLLDLKEGIDQLENNKTLGFILSTLLAIGNFLNGTNAKAFELSYLEKVPEVKDTVHKQSLLHHVCTMVVENFPDSSDLYSEIGAITRSAKVDFDQLQDNLCQMERRCKASWDHLKAIAKHEMKPVLKQRMSEFLKDCAERIIILKIVHRRIINRFHSFLLFMGHPPYAIREVNINKFCRIISEFALEYRTTRERVLQQKQKRANHRERNKTRGKMITDSGKFSGSSPAAPSQPQGLSYAEDAAEHENMKAVLKTSSPALEDATPVLGVRTRSRASRGSTSSWTMGTEESPSVTDDAADEIMDRIVKSATQVPSQRVVPRERKRSRANRKSYTNTWSSWQPRRRRRSLEARA
IRESfinder result
IRESfinder score
0.445922953
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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