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mmu_ciFhad1_978
Basic information of circular RNA
PanCircBase ID:
mmu_ciFhad1_978
mm39_Chr. Position ID:
chr4|141690917|141691895|-
Gene name:
Fhad1
Transcript:
ENSMUST00000105780.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
9
Exon/intron offsets:
0
Genomic length:
978
Exon/intron sizes in nt:
978
Flanking exon/introns:
chr4:141690828-141691895
Splice length:
978
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTTGATGGTCCTCATTGCCTCTGACCTTGATGTGCTTGGTGCGAGCCGCGGCCCTCCCCAAAGCACAAGGTTCTGGCTCTGCTGTTTGGAGGAAGCCATGGAGCTCTCTCCAGGTTTCTCCAGCTAGTTGCCTCTGTTTTTCCCATGGGTTTCCCCTGGAGCTGAGCAGGGACAATGTCAGGAGGCCACACCTACTGCATGCATGCACACAAGCATGGAGGGGGCATTAGATACCCACGAACTGGGATTGCATACAGGTGGTTGTGAGTCACACATCATGGGTGCTGGCATCTGAACTCAGGTCTTCTACAAGAGCATTCTTAATTGTTGAGCCATCCTTCTTGCCCCTTTGCAGATATTTTTCTGGCCACCTTCTCTCTAAGACAAACAACAACCTTTCTCTTTCTTTCATTTTTACTCAGTGTTATGAAATCTCGGTTGTTAAAAACAGGAGATATTTGTGTTCAGGACACCACCTGTGGCCACATTTAAATGGTAGAATTTAGATTTATGTAAACAAAGGTCCAGGGCAGGGAACACACCTAAAAATAAACATCTAAAAATGCAATAAAAATGTCATCTTTATGTCAATATCCCAGTCCCTCTTGTCCCTAGTAAGCAGGTTGCTCTAGGTTTGATTGAGCGGCCCTGTCTCTGGCTTCTGAGGCCCGGACTTCAGGCCATGCCCATCAGGCTCTTGCTTGGGTTCTGGGGATCCGAACTCCAGTCCTTGTGTTTGCACAGCAAGCACTCAGCCACTGAGCCATTCTCCCAAGCCCTTCAAACCCCTTCTACTGATTGTTTTTTTCAAAGAAATTAATTCTTTTCCTTTATCAAGCACATTGAATATATTAATCAGGGGGTTGGGTGAAGAGAAATCTACTTTGCCTGCAAATGTAGAGCAAAGAAGGCGCTTAGCTGGCTGGTGTGGATCCTACCTGTATGAGTCCCAGGAACACGGGAGACCTGGGGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGGTGTGGATCCTACCTG
59.82
CTCCAAACAGCAGAGCCAGA
59.96
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGCTGGTGTGGATCCTAC
59.82
CTCCAAACAGCAGAGCCAGA
59.96
151
PCR template sequence:
GAAATCTACTTTGCCTGCAAATGTAGAGCAAAGAAGGCGCTTAGCTGGCTGGTGTGGATCCTACCTGTATGAGTCCCAGGAACACGGGAGACCTGGGGGGGTGAGTTGATGGTCCTCATTGCCTCTGACCTTGATGTGCTTGGTGCGAGCCGCGGCCCTCCCCAAAGCACAAGGTTCTGGCTCTGCTGTTTGGAGGAAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-31-5p(1), mmu-miR-19b-3p(1), mmu-miR-127-3p(1), mmu-miR-218-5p(1), mmu-miR-541-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-5101(1), mmu-miR-669d-5p(1), mmu-miR-540-3p(1), mmu-miR-490-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGACCTGGGGGGGTGAGTTGATGGT
siRNA sets
ATCAACTCACCCCCCCAGG, ACCATCAACTCACCCCCCC, CATCAACTCACCCCCCCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.77974072
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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