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mmu_ciNbr1_3227
Basic information of circular RNA
PanCircBase ID:
mmu_ciNbr1_3227
mm39_Chr. Position ID:
chr11|101447117|101450344|+
Gene name:
Nbr1
Transcript:
ENSMUST00000103099.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
3227
Exon/intron sizes in nt:
3227
Flanking exon/introns:
chr11:101447117-101450344
Splice length:
3227
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTACCGCTTTGTTCTGTTTCTCAGTGGGTTATACACAGATATTTTTCAAAATGTAGCTATTTTGAGCAGTTTATTTTATCCATTTCTGGACCTTTTGGAAAATCATTTTTTACAGGGATTTGGTATTAGTAGAGAATATGTACAAGGAAAAAGGAAGAAACAATTATGTTCCTTTAAACATCTTTAAAATTACATATATTAATTTTTTTGAGAGAGAGCAAAAATCTGGGACAATTTTGGGAGTTGGTTCTCTCTTGTATGAGGTAAAATGATATTTTCAGTGAATTAGGGTTTAGAGACATTCTGGGGATAAGTTAGGCTGTCCTTCCCTGCAGCCAGGCCGTAGTGGGTGTTGTCTGACTGGAGAGCAGGCGCACTGCTGTGTTTGTTACCTGACGAGGATGGGATTTGTGTTTTGCAAGACCGGTCAGTTGCTTTATCGCTGGGTCAAAGGTTGGATGTCTCAGAGCTGGCAGAAAGCAGCGCAGCTCCCATGGGTGCCCATGCAGCAGCTCCTCTGCTCCGTGCTTTGGTTTAGTGTCTTTCATCTTGCTTTGCCCTTTGTACTCTTCTGGTTTGTGGGTTGCCATGGTCAATGTTTTCCTACTTGGGCATCTGTGTTTAATGTAACCATTTTTGGTTACAAATATTTCTTTACCTGGTTTATCTATGTGGGTAACTTCAGCAGGAAGGACATTTTAGAAAGGGGCCTTCCAGTGTGTTACAGTCGTTCCCTGTCTTCCAGCAGTTTCTCTCCATCCTGCCCTAGGCAGGTGGCTATTGAGGAAGCAGTGGGGTCCTGTTAAATGATCTGAGCACCAGATTTCTTTCTTTCTCTAGCAGCTGTTGGGTGAGTTGGCAGCTTGCCCTTTTTTTTTTTTTTTTATTGGAACTTGTTTTGTTTTGTTTTGTTTTGTTTCGCTTGAGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTAGAACTCAGAAATCCACCTGCCTCTGCCTCCCAAGTGCTGAGATTAAAGGTGTGCATCACCTTGCCTGGCTGGAATTTTTTTTTTTTCTTTTTTTAAGATTTATTTTATGTATGTGAGTACACTGTCGCTGTCTTCAGACACACCAGAAGAGGGCATCAGATTTCATTGAAAATGATTGTTAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCGGAAATTTTTAAATTATATCCTACATGTGCAGTTCACGTCTTCTTTAAATAGCCAGAGAAAACAGCCCGAGGAACTTCCCACATTTCCATGTTCATGCGGTTATCTGGTAGGGTCATACAGTCTTCTACATCTTGCTTTTCTTGCCCAACAGTATATTGTAGCTGTGGTTCCTCGTCAGTAGACACAGCAATCTTAGTCTTTTACAGCTGAGTCCACGGTGTTCTTAGTATTGCTGGACGATGTGGATAGGACCATTACTTACTGATTTCCCCACCAAGGTTTTCTTTCTTTTCCCATTATAAAATAGACAGGACCTACATCTCAGTATGAGTAACTTATGTGTGGTTCTATAGAGTAGAGTCTATCCAAAGGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGACAGATAGGGACTGGAGAGATGGCCCAGTGATTAAGAACACTGGCAGCTCTTCCAGAGGACCCTGTTGGATTTCCAGCACCCAGGTGGCAGCTCACCGCTCGCTATCTGTAACTGCAGTCTCAGAACGTCAGCCATCCTCCTCTTTCCTTTGCAGGCAGCGCACTCATGTGATGCACAGGCATATGTGAAGGCAAACACTCAGATGCATCAAATGAAAAGCATTTTCATAGATAGTGCCAAGTGGTCCACAGAATAATTATAACAATGCACAGAAAAAATGACTCAATGCCTAGAAGGGTGTTCTGTTTTTTATTTTGTGGGGCCGGAGGTCAAATGTTGGACCTTCTACATGCTGGACAAACATTCTGCCACTAAGTTTTGTTCCTTGCCCTGAACCTTTGACAACACTGAATATTACAACTTCAAAAAATATTCATGACCAGGCGTGGTGCTGCACACCTCTAGTCCCAGTATTTAGGAGACAGAGGCAGGCTCTGTCTTAGACTCTGTGAGTCTAAGGCCAGCCTGATCTACAAAGTGAATTCCAGGTCAGCCAGAGCTGTTGAACAGAGAAACAGCCATGTCTCAAAAAAAAAAAAAATGTTCACATCTTAATAATGTGTCAGATGTGTCTCTGTTTACACTGTTTGGCTAGAGGTAAGGTTGAATATGTTTATATATTTATTAGGCATTCCTATTTCCTCTTCTGTATATTTTGTGCACATTTTTACTTGTATTACTCTGTAAGGTTTTTGTTCGTTTTTGTAAGTCTCTCTGGCTGTTCTGAAACTTACTCTGTAGTCCAGGCTGGCCTCACACACACACACAGACATCCACCTGCCTCAGCCTGCTGCATGCTGGGGATAAAAGCTTAAGGATGTGCACAGCTGCACTGGACACTGGATTATTCCTCCTGCTATCGGTTTTCATGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTTACAAGTTTTACCCCTTTATCTGTTAACTCTTACAGATGTTTTCTCTTAGTCTGTTTTAAGTTATTTTTAAAAACTATATTAAGGTGTTATGTACGTTGGTGAAGGGCTCAGTTAGCATTTCCAAAGCTCTGCATTGAATCCCCAGCATCACAGAAAAAAATGAACATAAGGGGCTAGGGAGAGGGCTCCTTGGGTTAAGCCCTTGCCACACAGGTGTGAGCACCAGTGTTTGGATTCCCAGCACCCATACAAATGTAAGTGTGTGTTATGGCCTGTCCATAGAGGGCATCCTGGGAGCAAATTGGCTGGCTAGCCAGATTGGGGAGCTCTTGGTTCAAGAGGTTTTGCCTCAATATGTAAGTTGGAGATTCATGGGCTGCTATCTGCAGGCTGCAAGAGTGGTCTTGGAAAGGCCCACAAGTTTACCACACTACTGGTGGCTTAGGCAGAATACTCTCCGGCTCCACCATTACTGCTAATGCATGTAATGTTTGGAAAGTTCATATTCAATAAAAGAAAGTCAAAATGATTCATCTTATATAGTGAGATACACTGAGCCAATTGTTTCATTTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATGTAATGTTTGGAAAGTTCATATTC
56.11
TATCTGTGTATAACCCACTGAGA
55.94
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATGTAATGTTTGGAAAGTTCATATT
55.1
TATCTGTGTATAACCCACTGAGA
55.94
140
PCR template sequence:
TAATGCATGTAATGTTTGGAAAGTTCATATTCAATAAAAGAAAGTCAAAATGATTCATCTTATATAGTGAGATACACTGAGCCAATTGTTTCATTTGCAGGTAAGTACCGCTTTGTTCTGTTTCTCAGTGGGTTATACACAGATATTTTTCAAAATGTAGCTATTTTGAGCAGTTTATTTTATCCATTTCTGGACCTTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
35
Interacting miRNAs (#binding sites)
mmu-miR-466d-3p(4), mmu-miR-466b-3p(4), mmu-miR-22-3p(3), mmu-miR-199a-5p(2), mmu-miR-298-5p(2), mmu-miR-377-3p(2), mmu-miR-134-5p(1), mmu-miR-1a-3p(1), mmu-miR-7b-5p(1), mmu-let-7e-5p(1), mmu-miR-150-5p(1), mmu-miR-33-5p(1), mmu-miR-148a-3p(1), mmu-miR-30c-5p(1), mmu-miR-216a-5p(1), mmu-miR-709(1), mmu-miR-185-5p(1), mmu-miR-381-3p(1), mmu-miR-495-3p(1), mmu-miR-214-3p(1), mmu-miR-149-5p(1), mmu-miR-434-3p(1), mmu-miR-431-5p(1), mmu-miR-96-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-370-3p(1), mmu-miR-224-5p(1), mmu-miR-342-3p(1), mmu-miR-1187(1), mmu-miR-335-3p(1), mmu-miR-3470b(1), mmu-miR-574-5p(1), mmu-miR-146b-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTCATTTGCAGGTAAGTACCGCTT
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
0.841608851
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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