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mmu_ciMicu3_2411
Basic information of circular RNA
PanCircBase ID:
mmu_ciMicu3_2411
mm39_Chr. Position ID:
chr8|40809968|40812379|+
Gene name:
Micu3
Transcript:
ENSMUST00000068999.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
2411
Exon/intron sizes in nt:
2411
Flanking exon/introns:
chr8:40809968-40812450
Splice length:
2411
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGAAATACTTTATAATGGTTTCAAGTGGGTTTTTCCAGGTGAGAATTATTTTGTACTTGTTGAAACAGTGTCACACTTAGAATTTGGATCGTTTCCTTTACTGCAAACATTTTGAAGATTTAATGTAGAATAATTATTTAAGTATCTTATGCATCAATATCAGTATCAATATTTGACATAAATATTGATATTAAGTATCTGTACCCAATCATATTCATTAAATCATTTTCATCCATACTGTCGTTATTTGTGAGATATGAAGGGTATATATCATATAATAGATTAATAAGATCATTATGCATGTAAAAATTTAAAGGTGAATATGCAAAGATTTAATTCTATAAGTGAATTTAATGATAGTGTAATATAATGAATGGTAAATATAAGGAAATGATGTAGGCTTTCTGCATCTCTTAGAAATAGTATAGACTCTTCTCCTGGGTCACATGTTAGTGCCTCATTCTGCAGTTAGAATTAACAGTATTTCATCTTTACAGTCTTCATTTTATTTGTCCCAAATAATCCAGTCTTAACCACAGGCCAGTTCACATAAGCAACAACAATGACAAAATAACAGATTGGTCCTAAGCCCTTACTATCAGGCACAAGGCTATGTGCTTTTCATGCATTTAATCTATCCACCAATACTCCTGTTGCCCACAGTCCAACAAGGAAACTGACCGTTATAGAGTTTAAGTATCTTATGCAAAATTATAATCCTGTTCAGTGACAAAGTCACAGTTTCAACCTTTGGTGGCCTGCTCTGAATTCTCTACTTTTATCCATCTTAATTTATTCATTTGCTATTTAAATACCAAAAATATGGTACATTTCATTGTCATGTAACAAATACTTAATTAGAAATATAATTTTAGTCATTAACATTTACTAAAATATATAGGTCAGATAACATAGTGGGGAAAGCTACAGTATCAACACAAAAGCCAAGGTAAAGAAATTGTAAGACACATTGTACAAAAAAAACATACAAATTGTAAGATACAATATACAAAGAAATGTAAAATACATTGAAAGCAAGCATTTCATAATAGTGATGTAATTCACATTAATTTGAATTAATTAGGCAAGTCTAGGTAAATTATGAAATCTATATTATATGACCTTATCCTAGGTGATATGTCTTATATTCCCTAGCAAATATATTGGGAAATAAACTTAGTTTTAAAGAACAAGTAAAAATAACATATAAGTTGTGTGTAACTTGATATATATGAATGACCTCATTACAGTAATTAATCTACAGGTCCTCAGAGGTGTTGATCTGAATTTAAACAGCCCTGCTCAAAGCTCATTAGGTAACGTAGTTATCAGGTGTTCCTCCCAGTGACCTCTCCCTGACAGCACCATTCAGCAGCAGAGCCCTCTACAATTCTTCATTGCCGTACTTGACATGGCAGTCCTTGCTTTCAGTGCATTAGTCATATTTTAAACAATACAAGTCTGAATTGACTTTGACTAGTCTATCTAGAGACGACCAAGTAAAATTAAAATGTAAATGGCTTTGGCAAGTTGATAGAAATGATAGTATACATGTACACATATTCTAAACACTAGATTGAACTTAAAACAACTAAAATTTATCTCATAGTAAAAAACTGAGACTAAGCCCAAAGATAAAGTAAGCCAGGCCCATGAGCCAGGTCCAGAGGATTTAAATATTCCCTCTGTGATGCATTACTGATCTTCAGTAAGATTCTTATTCTCTCTGTCTCAGTATTTTTACATTTACAATTGAAATAATAGAAAAACGTTGTCACCACCAGTAATTTTATGAGGATTAAATGAGTTAAAATGCTACTTACCAGTATAATACATAATTATAAAAATATAATAGACATCAACAATGTTAGCTGATAGACTTGATAACAAGCTCCTGGTTTCTTTAACTGAAAATTAGCATTCCAAACAAAACTCTAAAATACGTCCATGTCATTAAAACTCTGAAATGAACACTTTGTTCTAAGGTCTATGCTAAGACCATAATGAGTGGTACTCCTTGTATCCCCAACTCATTCCTGGCAGGTAAGTGTTACTACTGCTCCACAGGTGAGCAGAGCCTACATCAGGGCAGTGAGCATAGCAAAGAATAGGGTTCCAGGGCAGGGCCTCATCCCATTGTCCACATCCATCCTGCTGCGAGCCCCGCAGCCCCACCTCCACTCGCTCAAGCTCACGAGGAACTGCTTGCTCACAGCAGCGGTCCTTTCATGTACAGTGAAATGGCTGAAATGAACACAGGCTATAGGCTCAGTCAACATTTATTTATACTGAGTTTAGAAACTTTGCTACTCATCTTTAACATTTATCTCACTTGTGTGTGTGCTTTATAGAGAATGTAGCATAATGATTTGCCCTTCCTAATTGATTATTTTGTCGTCTTTTTCTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCACTTGTGTGTGTGCTT
57.6
AGTGTGACACTGTTTCAACAAGT
58.93
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCTCACTTGTGTGTGTGCT
57.37
AGTGTGACACTGTTTCAACAAGT
58.93
163
PCR template sequence:
ACTCATCTTTAACATTTATCTCACTTGTGTGTGTGCTTTATAGAGAATGTAGCATAATGATTTGCCCTTCCTAATTGATTATTTTGTCGTCTTTTTCTTTGTAAGAAATACTTTATAATGGTTTCAAGTGGGTTTTTCCAGGTGAGAATTATTTTGTACTTGTTGAAACAGTGTCACACTTAGAATTTGGATCGTTTCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-32-5p(1), mmu-miR-429-3p(1), mmu-miR-221-3p(1), mmu-miR-203-3p(1), mmu-miR-143-3p(1), mmu-miR-381-3p(1), mmu-miR-192-5p(1), mmu-miR-215-5p(1), mmu-miR-340-5p(1), mmu-miR-297a-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
CGTCTTTTTCTTTGTAAGAAATACTT
siRNA sets
AAGTATTTCTTACAAAGAA,TCTTACAAAGAAAAAGACG
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
0.882602638
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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