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mmu_ciGc_1649
Basic information of circular RNA
PanCircBase ID:
mmu_ciGc_1649
mm39_Chr. Position ID:
chr5|89591507|89593156|-
Gene name:
Gc
Transcript:
ENSMUST00000049209.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
1649
Exon/intron sizes in nt:
1649
Flanking exon/introns:
chr5:89591475-89593156
Splice length:
1649
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCGTGTGTGTTAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTATGTGTGTGTGTGTGTGTGTGTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTCTATTGTGGACCATGGATGTTAACAGCCATAAGCCTTTATGTCACAATTTTAGGACACTCTAGATACCAAGCCACCTAATCCCAGTTGGAAGGAAAAATAAAGACTATTATTTTTAGTGCCCATGCTTATTTTAGTGCTGTGTTCCTTTTATTTAGTGTCACAAGTTTCAAAAGAAAATAACTGGAATGAGATAACTCAATGACTTACTAAATAAATGCTGACAATGAGGGCCATGTGTCAGGTTTAAATCAAGGTTGGACTTCAAAATTCTTGTAAAGTTATATTCATAGATTGGTACCTAGCCCAATTGTCATCAGAGAGGCGTCACTCAGCAGCTGATGGGAATAGATACAGAGACCCAGAGCCACAGAACACACAGAGCTTAGGGAAACCTGCATTAGAAGGGGGAGAGGACTATGGGAGCCAGAGGGATGAAGGATACCACAGGAAACCCACAGAATCAACTGACTTGGGCTCATAGGAGCTCACGGAGACTCAACTGCCAATCAGGGAGCCTGCATGGGACTAACCTAGAGCCTCTACATGTATGTAATGGTTGTGTAGCTTGGTCTTCTTGTGGAAATCATAAGTGTGGGGAGATGACTCAGCAGTTAAGAGCATTGGCTGCTCTTCCAATTCCCAGCAACCACATGGTATCTGATGCCCTCTTCTGGCATGCAGGAGTACATGCAGGTAGAGCACTCGTATACATAAAATACATCCTTAAAAGAAAAAAAAAATCTATTATTTATGTTGTTATTGAAGATCAGCCTTAGTCCATGGTGATCTGATAGGTGCGGTGGCACACGCCCTTAATCCCAGTGCTGGAGAGTAGCAGAACTGGAGCTGTGCACAGCAGGGGCTGCTAGTTTCCAGCTTCTGCCAAGGATAAGACCTAAAACTTAAGGGAAGACCGATTCTCAGTCCCCAGCTTTGACCTGCTACGCAAACATTAACTGTTTTAAATGTGGATACGTAATGGTGATATAAAATCACGCTGCTGGAAGGACAAGCAAGTGTAACTTACAGGAAGCTAAAGCCAGCGATGTGAAAAGGATGTTCATTTAGTAAAGGGAGGAGGGGAGGCCATGGGAGGACCTCCTTGCTGTGGTCTAACTGCAAAACAGTGGGTGGGAGATGAGATGAGATGAGATGAGATGAGATGAGATGAGATGAGATGAGATGAGATGAGATGAGATGAGATGAGAGCCACTACCAGAATGTCTCCAAGTGTTCCTCTCCTCAGAGATGCTAAAACCCCTTCACTGAGAAACACCAGGCTATGTGATCAAGGCCAATGGCTATATAGCCCAATAAGTACGGTCTATTTATTTATGAAAGTTGTTCCATGTTCTAGTCTGGAGAGTGTCATTGACTAACATAAACAAGATTGTATGCTTGCCTTTGACCAAAATTATTCAATTTTGCATGTTCGTAAGCCATAGTGTGGAAGCTTGACTACTAATGAGGATATGTAAATTAGAAAGTATGCATTATACTGATCAGAGATTCACTCCCACTGTGTAAGTTTTCTGGGTTTTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGTGGAAGCTTGACTACT
56.1
CACACACACACACACACACA
59.13
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGTGGAAGCTTGACTACT
56.1
CACACACACACACACACACA
59.13
142
PCR template sequence:
TAGTGTGGAAGCTTGACTACTAATGAGGATATGTAAATTAGAAAGTATGCATTATACTGATCAGAGATTCACTCCCACTGTGTAAGTTTTCTGGGTTTTCGTAAGCGTGTGTGTTAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTATGTGTGTGTGTGTGTGTGTGTGTCTGTCTGTCTGTCTGTCTGTCTGT
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-466b-3p(4), mmu-miR-466d-3p(3), mmu-miR-205-5p(1), mmu-miR-328-3p(1), mmu-miR-320-3p(1), mmu-miR-128-3p(1), mmu-miR-149-5p(1), mmu-miR-362-5p(1), mmu-miR-690(1), mmu-miR-344d-3p(1), mmu-miR-670-5p(1), mmu-miR-697(1), mmu-miR-1904(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTCTGGGTTTTCGTAAGCGTGTGTG
siRNA sets
ACACACGCTTACGAAAACC, CACACGCTTACGAAAACCC, ACACGCTTACGAAAACCCA
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
0.621286722
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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