top of page
mmu_ciMap3k5_4000
Basic information of circular RNA
PanCircBase ID:
mmu_ciMap3k5_4000
mm39_Chr. Position ID:
chr10|19895327|19899327|+
Gene name:
Map3k5
Transcript:
ENSMUST00000095806.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
4000
Exon/intron sizes in nt:
4000
Flanking exon/introns:
chr10:19895327-19899353
Splice length:
4000
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTATTTGGCTTAACTTTCCAATTTTTTTTTTTTACTTTTTTCTTTTCCATTAATTAATCTGTTATTTCTAAATCTGTACAGATGGTCAATTTTCATTTCTTTTACTCCTTTTTAGAGCTTCTCACATGTCTGTATGAACACAATTATGTTCTCTAACTCATCATAGTGGATATTATAACAATGGAAGATAACACTAATACCTACTTTTTGAATATATAATTATGTTTTAGAAAAAAACTTTCATAGTACATTCAATGTTACAGAACTATAATTGGCAATATCAAGGCATATAACAAAGAAATATATATGTGTATATATATTATCCATATATGTCAATATCTATGGATATAAATACATAGATGTATATGTATATATGTGTTGATATACATGGATATATACATATGTGAATATATAAATATATATCATATATATTTTCTGTGTTTCTGTTTGTCTATCATGTATCTTCTATTTTGAGGCATTCAGGCAAATTCTTAGGTTGTCTTTTTGTCTTTGTTTGTATAGTGCTGGGGACTGAACCCATGGGCATCTACTTGTTAGGCAAGTGTTCTACCACTGAGCCAAATCCCCAAGCCCTTTCTCTAAGCCTGAAATTCTTCCTTGAGATCACATTACAGAGCGCAAACTCCTCATACAGAATTAAATTAATGTGAAAACCAGAGATATTTAATATTTTAAATTAAAAAAGACTGCATGGGAAATGTTGAACTATTACCGTAGAAATGGGAATGGCCCTGTGGCTCAGTGGTATATTTTATCTTGGGAAGTAAGGCAGTGTTTAAGAACCCTAAAACAGGTATACATCTACAATTCAGAGCGAGAATAACATGTGACATAAGACCTACATAATTCCACATGAGATGGCAAGATTAACGTTATAGTTGGTGGGTTTAAGATTTCACCACAAGGAAGACGCATTGCAGTGTGGATAATGTGGCCATTTTAAACTCTTATCTCTCACATTTCATCAGGAAATGAACACTTCCATTCCATGCTTCAGTGCTGTGTAACACATTTTATTCAGCTGGTATTAATTAAATGTGAATGGTATGCTAGGACCTGGGTGTGGTGCCTACCAATCACACTAGTGCTTGAGAATAAAAACAGTGGTGTTTATAACTGTTGTGTGAGATCAAATTGTGGGAATGCTAGAGTATCAGGACAGGTAAACAAAGAATCAAACAGATACATTTTTAGGAAATTAGGGCACATGACTTGCTGAAGAGATGGTGGCCATCATTATATCAAAGCCCACCAAAGGAGGTAGCATTCCCTAAGCCTGAAGGGCAGGAAGGGTAAGAGGAGCCTCGTGCCTTGTGATATTGATTTAGGTTCTGCTGCAATCTGGGGACTGGATGTGATCTGACTTATGTATACTTCCTTCAGTGTGTTTGAATGCTGTGACCATTTCCTTCCAGGCGTTTGACTCCTTCTCCACACGTACTTTTGTTCCTTCATATAGTTCTTAAGGATTAAAAAGGAAGATCAGCATTATTGATATCTCTGGATATGGTCAAGTATAGGTTTTAGATTTTGAGCATTAGGATTTTACACATATAGACAGAGCGAGGGGAAAGGAGAGAAGAACAGAGAGATAGAGAGACAGAGAGAGAATATGCATCCAGCTTGGGCAGTGGCTCCAGTCAAAGGATTAAGTTAGGTGGCTGTGCTGCTCTGAGATCCGGGTAGCATCCTAGGAGAACAAGTTCTTTTTCACTCTTCCTGATTGGCCTCCCCATCACTTTGTAAAGGGCAACTTGATTTGGTTTAAACCCCACATCTCCCCTTGTGGAAGTCCTTCTCATACTCTGACGTCAGGTCAGTCTCATTTCTTGCTCACTGCCGACACCCAGGTGCTTCAAAGCATAACATGCTCATAAATAATTAAATCTGGCCATAAAAGCTCATGCTTGTAGTGAGCTGTCATTATTACTTCATGCAGATGCCTGTGAAGGCGATATCGGGAGGGAGAGCAAGTGCAGCGCCCTATGAAGGTCATGTGAGATGGTTAATTCACCCTAACAACAACAACATGCTCTATCTACAGAGAAAGCACTGGGCGAGAAGCTTGAATACACCAAGGCCAGGAGCTTGGTCTAAGCTCGATGCCACCTCGCCTGTAAAGTGGCACCAAGAGCCTCTTCTGTGTGTGTTGTGGTCATGTAAGCACTGAGGCTATGGTGACAGTAAGGCCACATGTCCCTTCTTCCTTGCAAGTACTGAGTTAATGTTTGCTCTTGCCAGTCAGGGCCGAGCAGTAAGAGAGTGCACACTCCCTGCACGCCTGAGGCCAGGACTCCTAGTGCTGTCCAGGAGGCACACATCCCGTCTACTGCTCAGACCTTTGCATACGCTTTTCTTTATGGGTTTCCCTTAGAGGTCCCTGGCATTTCATTGGGTTATCTCAAATCAGACCCTGATCTGTGTTTACATTCCCATGCACCCCAAATCCCTCCCGGTCTTTCGAAGGCAAGCTATACTCCTTCCAAGTGAGCGTTCCATTCCAGCCCACTTCAAGTTTCAGTCTCTTTAGTCTTCTCAGAGTTTAGCTGGGGGGGGGGGGGGGCTCTATGTGGGGTCTGCTGCCTGAGGTTCTTAAGAAAGCAGCGTGCTGACAGTGAGGCCGCATTCTTGCTTCCTGGTAATGCAACCATTCTTGTAAAGAGGCCCCACTTGGATCCACCTTCAGCGCCTTCCCGTGCATGCAGCTGTATCTCCGTCCCAGTTGATTCTCCTTTTGGGTGCTAAGCTTGAGCTTTATAAGGACTTACTGGTTCAGGTTGCCTCAACCCCGAGCTGGTTATGCCACATAGCTTTCTGCCTCATTTCCTTACATCTTGGCTCCTGCTCTTACAGTCTATCCTGTTGCCTACCCAGAATGCCCACGTGCACAGCCACTCTTGTTTTGTCTTCTCTGCCCAGGATCCTCTGCTCGCTTCACACTCCTCAGAATACATAGTTGAAAGTCTTTAGCTTGCCTTGCGGTCCTTTTCTTTGGGCCCTAACTGCAGTCAGACTTGCTTACCCCGGGGTCTATAGTCCGGTTCCCTTTGTCATCTCCCAACAGTGCTTCTGTTGGGCACAAATGTCCCTTCATTTGGCATGATCTGGAAACTGCTAGGTCAGCCAAGCCTGGTCTTAGTGACTCTGGGAGAGGGCACAGACTGCAGCTAGCGAAAGGCAGGATGTGCAGGGGTTGGGAGTCTGTGGACAGCAGCCTAAGCCTTACCCTCATCACAGGCTCGCCTGTGGGGCTTCGTGCAGCTTTGTTTGTAGCTCACGTAGGTAGATGTTAAAGACTGTCTGGGAGCTGGGTAGAGAGAGGATAGCAGGCAGTCAGTGTGGAGGTCAGAGTGTAGCAGGGAAGGCAGTGTGGACCAGGAAAACCATTGCAGAGACTCAGGCAGGTGTAAGGTGTGTGCACCTCCTTGCTAGCAGAGAGGAGGGAGTCAGGCAAATCTGAGCTTGTAGAGCCAGGAGAGCAAGGGCTGCGACAGTCTCACAGTCTCGGGTTTCAGTGAGTGGGAGACAAGATAGTGTGGACCTGGAAGGAAGCAGCTGTATTCTGGGCTTGCTCCTGCCTTCCCAGGGGAACCCTTAAACTCCCAGTGAAACTCCTAAGCTCTCAGTGTTTTGTTCTCCTTTTGTTGAGCCTGATTGAATTTCTGATTCCCTGGAGGCTGGAAGTTATGCTTAAATCATTCTTGTTTTAGCACGTATCCTAGTAGCAACGTGTGACGGCACATGCATATTTAATGGCTGATAAAAGATACTTTATCATGTGCAAGTCCTAATTATACTGAAGTAAGCAATTAAGGAAGTTGGAAAATTCTGTTTTCATGGGTCATCAATAAGAAATGAATCTCTTCTGTTTCCCTTTGCACTCAGAATTATTGTTAAGAATAATAACTTTAGTCACTGTAACACGACCTGGCGTTTTTTTTGTCAGTGTGGTACCCCCCCTAGGCAAGCTCCCTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCACTGTAACACGACCTGGC
59.97
TGAAAATTGACCATCTGTACAGA
55.86
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTAACACGACCTGGCGTTT
60.18
TGAAAATTGACCATCTGTACAGA
55.86
158
PCR template sequence:
TTGCACTCAGAATTATTGTTAAGAATAATAACTTTAGTCACTGTAACACGACCTGGCGTTTTTTTTGTCAGTGTGGTACCCCCCCTAGGCAAGCTCCCTAGTGAGTATTTGGCTTAACTTTCCAATTTTTTTTTTTTACTTTTTTCTTTTCCATTAATTAATCTGTTATTTCTAAATCTGTACAGATGGTCAATTTTCAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
42
Interacting miRNAs (#binding sites)
mmu-miR-122-5p(2), mmu-miR-192-5p(2), mmu-miR-574-5p(2), mmu-miR-124-3p(1), mmu-miR-155-5p(1), mmu-miR-296-5p(1), mmu-miR-15a-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-150-5p(1), mmu-miR-31-5p(1), mmu-miR-19b-3p(1), mmu-let-7c-5p(1), mmu-miR-15b-5p(1), mmu-miR-335-5p(1), mmu-miR-130a-3p(1), mmu-miR-19a-3p(1), mmu-miR-184-3p(1), mmu-miR-203-3p(1), mmu-miR-149-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-130b-3p(1), mmu-miR-215-5p(1), mmu-miR-324-3p(1), mmu-miR-297a-5p(1), mmu-miR-98-5p(1), mmu-miR-499-5p(1), mmu-miR-325-3p(1), mmu-miR-680(1), mmu-miR-384-3p(1), mmu-miR-342-3p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-5101(1), mmu-miR-532-5p(1), mmu-miR-3470b(1), mmu-miR-697(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCAAGCTCCCTAGTGAGTATTTGGC
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
0.815367455
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page