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mmu_circFhdc1_803
Basic information of circular RNA
PanCircBase ID:
mmu_circFhdc1_803
mm39_Chr. Position ID:
chr3|84371578|84382084|-
Gene name:
Fhdc1
Transcript:
ENSMUST00000107689.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,1150,9868
Genomic length:
10506
Exon/intron sizes in nt:
103,62,638
Flanking exon/introns:
chr3:84364578-84371578|chr3:84382084-84387674
Splice length:
803
Other database IDs:
CIRCpedia: MMU_CIRCpedia_31685, circAtlas: mmu-Fhdc1_0001
circAtlas: hsa-FHDC1_0011
Human Ortholog IDs:
Mature spliced Sequence:
GTCTGGAAGCTGACATGCAGCTCGGTTGCCTTCTCTTCTGGCAACAGACTTATGAGCCAAGAAGTCCGACTGGAGTTTGATGTTTGTGTCTGCTTCTCCAAGGTTAAGGAATTAGCTCCTTAGAAGGCAACAGTACTATGCATGTTATGAATTGTGTCTCCCTGGCCAGCGATAAAGAAAATGGGACTCTTGCCACAGCAGCTGCATTCATGACTGGGCAGACGTCACCCTCTGCATCTCCTCCACCTCCTCCTCCACCGCCTCCACCTCCACCTTGTCCACATTCAGGGGAGGGCTTTTCCCCCTCCCCTCCTCCTCCTCTGCCACCTCCACTTCCTGGGGGACCTCCCATACCCCCTCCTCCTCCTCCAGGACTCCCCTCAGTTTCTTACCTGAATGGCTACAGCTCCCTGGGTAAGAAGAAACGAATGCGGAGCTTTTTCTGGAAAACCATTCCAGAGGAGCAAGTTCGAGGCAAGACCAACATCTGGACCTTAGCAGCTAAGCAGCAGCATCAGTACCAGATCGACAAGAAGACCATTGAGGAGCTTTTTGGGCAGCAAGAAGACACCTCCAAGGCTTCTCTTCCCAAGAGAGGAGGAGCTTTGAATTCATCCTTCAGAGATGCCCGGGAAGAGGTTACCGTCTTGGATGCAAAGCGAAGTATGAACATTGGCATATTTCTTAAGCAGTTTAAAAAGTCTCCTCAGTCCATCGTAGAGGATATCTATCAAGGAAAGAGCGAGCATTACGGATCAGAGACGCTTCGAGAAATCCTTAAGCTTTTGCCGGAGTCAGAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAAGAGCGAGCATTACGG
59.07
CAGTCGGACTTCTTGGCTCA
59.68
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAAGAGCGAGCATTACGG
59.07
CCAGTCGGACTTCTTGGCTC
60.39
142
PCR template sequence:
TCCTCAGTCCATCGTAGAGGATATCTATCAAGGAAAGAGCGAGCATTACGGATCAGAGACGCTTCGAGAAATCCTTAAGCTTTTGCCGGAGTCAGAAGAGGTCTGGAAGCTGACATGCAGCTCGGTTGCCTTCTCTTCTGGCAACAGACTTATGAGCCAAGAAGTCCGACTGGAGTTTGATGTTTGTGTCTGCTTCTCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-298-5p(1), mmu-miR-680(1), mmu-miR-670-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGTCAGAAGAGGTCTGGAAGCTGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFHDC1_803_ORF_1
0.8496
0.216251821
0.946704325
789
ORF sequence:
ATGCATGTTATGAATTGTGTCTCCCTGGCCAGCGATAAAGAAAATGGGACTCTTGCCACAGCAGCTGCATTCATGACTGGGCAGACGTCACCCTCTGCATCTCCTCCACCTCCTCCTCCACCGCCTCCACCTCCACCTTGTCCACATTCAGGGGAGGGCTTTTCCCCCTCCCCTCCTCCTCCTCTGCCACCTCCACTTCCTGGGGGACCTCCCATACCCCCTCCTCCTCCTCCAGGACTCCCCTCAGTTTCTTACCTGAATGGCTACAGCTCCCTGGGTAAGAAGAAACGAATGCGGAGCTTTTTCTGGAAAACCATTCCAGAGGAGCAAGTTCGAGGCAAGACCAACATCTGGACCTTAGCAGCTAAGCAGCAGCATCAGTACCAGATCGACAAGAAGACCATTGAGGAGCTTTTTGGGCAGCAAGAAGACACCTCCAAGGCTTCTCTTCCCAAGAGAGGAGGAGCTTTGAATTCATCCTTCAGAGATGCCCGGGAAGAGGTTACCGTCTTGGATGCAAAGCGAAGTATGAACATTGGCATATTTCTTAAGCAGTTTAAAAAGTCTCCTCAGTCCATCGTAGAGGATATCTATCAAGGAAAGAGCGAGCATTACGGATCAGAGACGCTTCGAGAAATCCTTAAGCTTTTGCCGGAGTCAGAAGAGGTCTGGAAGCTGACATGCAGCTCGGTTGCCTTCTCTTCTGGCAACAGACTTATGAGCCAAGAAGTCCGACTGGAGTTTGATGTTTGTGTCTGCTTCTCCAAGGTTAAGGAATTAGCTCCTTAG
Peptide sequence:
MHVMNCVSLASDKENGTLATAAAFMTGQTSPSASPPPPPPPPPPPPCPHSGEGFSPSPPPPLPPPLPGGPPIPPPPPPGLPSVSYLNGYSSLGKKKRMRSFFWKTIPEEQVRGKTNIWTLAAKQQHQYQIDKKTIEELFGQQEDTSKASLPKRGGALNSSFRDAREEVTVLDAKRSMNIGIFLKQFKKSPQSIVEDIYQGKSEHYGSETLREILKLLPESEEVWKLTCSSVAFSSGNRLMSQEVRLEFDVCVCFSKVKELAP
IRESfinder result
IRESfinder score
0.590725368
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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