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mmu_ciMacf1_1168
Basic information of circular RNA
PanCircBase ID:
mmu_ciMacf1_1168
mm39_Chr. Position ID:
chr4|123257897|123259065|-
Gene name:
Macf1
Transcript:
ENSMUST00000123765.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
1168
Exon/intron sizes in nt:
1168
Flanking exon/introns:
chr4:123257867-123259065
Splice length:
1168
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGGAAGAGAAAAGCCAACCATTTGTGGAGGTCATTGCCTCCGGGGTCATCCTGACACACAGCAGAGCAGCTCATGCTGCCTGTTCCCTCCTGCTGCCTCCAGAGGCCCAGAACCCAGGCCTTCATCCCTAGGTGTCAAGTTTCATGCCCTGTGTAGTTCCATCTGAAAAGCTACCATTATTACCCAGGTAGACTGTAGCTTATAGTTGACATGGTAGAAAATATTTCATAGCCCTCATCTCACTGCTGAGCAAAACCTTAGGTGCCTTTAGAAACAGTTTTATTAAAGGACTTGTGAAGCAGAGTCTGAGATTCTTCCTGTAATCCCAGAACTTGGGAGGCAAAGGCAGAAGCAGAAGCACCATTGCAAGTTCAAGACCAACTCTACATAGTGAGTCGCAGCTAACCAAGGCCATATCACAAAAATGTCTCAGATATTTTTAAAAAGCATGGATCAGGATGCTGGGAATGGTTCAGTATATAAAGGTGCTTGCCACCAAGCCTGACAACCTGAGTTCAAGTCCTAAAGGGGAAACACGCACCCCAAAATTGTCCTCTGGTGTGTTTGTGCACATATACATTTTCTTTTTTGTTGTTGTTGTTTTGTTTTTTGGGCTTTTTGTTCTGTTTTAATTTTTTTCCATTAAAAAAAAAAGAGTGATGGTTTATCCACAAGAACTGGTCATTGTGAGCCTACTGGCTCCCATGCTAATAGAAGACGATGTGTGAAAGCCCCCAACACATAGCTAGTGTTGCTGTGCTGAGTTAGGCTACAACTGGAACCTACATGCCCTGGAGAGCCGGGCTCAGTGATCTTCCCTGGAAAGACTTGTTGGGTATAATCAGAAGTAACAGGAAACTATGCTTAAATGTTAGCATCTCTTAGGACTAGAGTCAGGGATGTAGTAGAGACATAAACCAGGACTCCTATATGCATCAGCTTGTCAAGGGACCCTGAAATTTTAAGGAAAAAAAAAAAACAACAAAAAAAAAAAACCTCTGGTTGGCAAAGAATATTTAGATGGCCGTTTTCAGGCTTTGTAAGATCATTGTCCTGTGGCAGATGCCCAGGAAAAATGTGGTCTGTGTTGTGTGTACTTAGATTGGTAATGTGATGAAATCGCTGTTTTTTTAGTTTTAATTTGACAAAAATGTTCTCTTTTTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGTCTGTGTTGTGTGTACT
59.76
GCTCTGCTGTGTGTCAGGAT
60.04
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCAGGAAAAATGTGGTCTGTG
59.7
GCTCTGCTGTGTGTCAGGAT
60.04
170
PCR template sequence:
CCCAGGAAAAATGTGGTCTGTGTTGTGTGTACTTAGATTGGTAATGTGATGAAATCGCTGTTTTTTTAGTTTTAATTTGACAAAAATGTTCTCTTTTTTTGTAAGGAAGAGAAAAGCCAACCATTTGTGGAGGTCATTGCCTCCGGGGTCATCCTGACACACAGCAGAGCAGCTCATGCTGCCTGTTCCCTCCTGCTGCC
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-23b-3p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-709(1), mmu-miR-203-3p(1), mmu-miR-23a-3p(1), mmu-miR-139-5p(1), mmu-miR-214-3p(1), mmu-miR-297a-5p(1), mmu-miR-680(1), mmu-miR-377-3p(1), mmu-miR-1198-5p(1), mmu-miR-670-5p(1), mmu-miR-323-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTCTCTTTTTTTGTAAGGAAGAGAA
siRNA sets
NA
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
0.754755246
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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