top of page
mmu_ciCibar1_1286
Basic information of circular RNA
PanCircBase ID:
mmu_ciCibar1_1286
mm39_Chr. Position ID:
chr4|12166936|12168222|-
Gene name:
Cibar1
Transcript:
ENSMUST00000108285.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
1286
Exon/intron sizes in nt:
1286
Flanking exon/introns:
chr4:12165771-12168222
Splice length:
1286
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATCCTTTGGATTTTGGTCTTTAAAACAAAAAGGTTTTGTGGGGTATGCAGTACAAAAGTAAATGTGTATGGAAATTATACATCTCTAGTTCTAAGTTGGGAATTTTCCTGTCAGTGGCAAAACGAATCCCATTAGGAATCCTCACTGGAGAAACAGGGCATCTTAGAGCAGCCCCACCTCCTCACCCAGTCTGTTTGCTCCTCCTGACAGACGACCCCCAGTCCATTCAGAAACGTTGATGTCTTTAGGGTAAATTAAAAAGTAAATGCTAATGTCTCAGTGCCCTTACCTGCAGTACTTTTAAGGAAGGGGGGAAATTTTCCTACAATGTCCTTCATTAAAACAAAAACAAACAAAAAAAAAACATGAAATCATAGTGATAACTTTTAGTCAAACCTTCAGGAGATTTCAGTATAATTAAGCTCATAGCAAGGCACATGGTATCTAAATATGAATGTTTGTTATAAAACAGTGCTTCTAGAAAACAATTACTTCCTGAACTAGAATATGTTTCATGCAGTGCTAGCAGCTGTGTACAAAGCACTGACATCTCCCTGCCACTCTTCCCCATTCTAGCTTGCTTGTGTCTCCCTCCTGCCCAAGGTTGCTTCTACCCAGCCAACCTAGCCAGACACCAATAAGGAGAAGAGACTCTTGGGGTATTGGAGGTTGAAAAGCACCTTCATTCCTAAGGGAGTCCCCTGGGCAGTGATTTGGGGCTACACCAATTACCTGGTCTGTCTTTCTTTAGGCCAAAGGTACATATGCCCAACTTTCTATTTTAAAAAAGAAAAAGGGCTAGAGAGATGGCTCATAGGTTAAGAGCACTGACTGCTCTTCCAGACATCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCTGATGCCCTTTTCTGATGGGTCTGAAGACAGCTACAGTGTTACTCATGTACATAAAATAAATAGATATAAAAAATAGAACAAAAAGGCAGTTCAGTTGGGCTGGTGCAGAATATGTATTGGACATTTATTGGACATTTATTGGAGCTATGAATTTCAAACCAGCCTGATTTAAGCAAGCTGGACAAACCAGAGAATGCTACAAATTCATTCCTGACAACTAGAGATCTGTCAGACTACAGAGTCACCATTAAGTCAGTAATCAAAATTTGTTTTGTTCTTGGGGTAAAGAGTCTATGAAGGCAGGTAAAATATACCACCTGTAATCCTGCATAGTTGTTGGTTGAATCACAAGTTTCATATTGATCTTTAACATAGAAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTAAAGAGTCTATGAAGGCAGGT
59.84
ACTGCATACCCCACAAAACCT
59.85
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTAAAGAGTCTATGAAGGCAGG
60.44
ACTGCATACCCCACAAAACCT
59.85
153
PCR template sequence:
GGGTAAAGAGTCTATGAAGGCAGGTAAAATATACCACCTGTAATCCTGCATAGTTGTTGGTTGAATCACAAGTTTCATATTGATCTTTAACATAGAAATGGTATCCTTTGGATTTTGGTCTTTAAAACAAAAAGGTTTTGTGGGGTATGCAGTACAAAAGTAAATGTGTATGGAAATTATACATCTCTAGTTCTAAGTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-141-3p(1), mmu-miR-335-5p(1), mmu-miR-495-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-324-3p(1), mmu-miR-466d-3p(1), mmu-miR-5101(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TAACATAGAAATGGTATCCTTTGGAT
siRNA sets
AAAGGATACCATTTCTATG, AAGGATACCATTTCTATGT
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
0.812198862
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page