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mmu_circPfkfb2_1556
Basic information of circular RNA
PanCircBase ID:
mmu_circPfkfb2_1556
mm39_Chr. Position ID:
chr1|130625642|130642313|-
Gene name:
Pfkfb2
Transcript:
ENSMUST00000187089.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
14
Exon/intron indexes:
14,13,12,11,10,9,8,7,6,5,4,3,2,1
Exon/intron offsets:
0,773,1282,2075,2864,3799,4325,7471,8520,8937,9146,9603,10170,16560
Genomic length:
16671
Exon/intron sizes in nt:
1,80,65,63,13,01,05,14,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr1:130618885-130625642|None
Splice length:
1556
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGCCTCCTGAAGAACTACCATGTCTGAGAATAGTACATTTTCCCCAGAAGACTGCAACAGCAGCTATAAACCCCACGCCTCAAATCTGCGAAGGGCAGGGAAGACATGCTCATGGGCTTCCTATATGACCAACTCCCCAACACTCATTGTTATGATTGGCTTGCCAGCCCGGGGTAAAACTTATGTGTCTAAGAAACTAACACGCTACCTCAACTGGATTGGAGTACCCACCAAAGTGTTTAATCTTGGGGTATATCGACGTGAAGCAGTCAAGTCCTATCAGTCTTATGATTTCTTTCGACATGACAATGAAGAGGCTATGAAGATCCGCAAACAGTGTGCTCTGGTGGCACTGGAAGATGTTAAAGCCTATTTTACTGAAGAGAGTGGGCAGATTGCGGTGTTTGATGCCACCAATACCACTCGGGAGAGGAGGGACATGATTTTGAACTTTGCCAAGCAGAATGCCTTCAAGGTATTTTTTGTAGAATCTGTCTGTGATGATCCTGATGTCATTGCTGCCAATATTCTGGAGGTAAAAGTGTCGAGCCCTGACTACCCCGAAAGGAATAGGGAGAATGTGATGGAGGACTTCCTGAAGAGAATTGAGTGCTACAAGGTCACTTACCAGCCCCTTGACCCAGACAACTATGATAAGGATCTTTCTTTCATAAAGGTGATAAATGTAGGCCAGAGATTCCTGGTCAACAGAGTTCAGGACTACATCCAGAGTAAGATTGTCTACTACCTGATGAATATCCACGTCCATCCTCGCACCATCTACCTTTGCCGGCACGGCGAGAGCGAGTTCAACCTTTTGGGGAAGATTGGGGGTGACTCTGGCCTCTCCGTGCGAGGAAAGCAGTTTGCTCATGCTCTGAAGAAGTTTCTGGAGGAACAGGAGATCCAGGACCTTAAAGTGTGGACGAGCCAGTTGAAGAGGACAATTCAGACTGCTGAGTCTCTTGGGGTGACCTATGAGCAGTGGAAGATCCTCAATGAGATTGATGCTGGCGTGTGTGAGGAGATGACATATTCAGAGATTGAGCAACGGTACCCAGAGGAATTTGCACTCCGAGATCAAGAGAAGTATCTGTACCGATACCCTGGTGGGGAGTCCTACCAGGACCTGGTGCAGCGGCTGGAGCCTGTCATCATGGAGCTAGAGCGTCAAGGCAACATCCTCGTTATCTCTCACCAGGCTGTCATGCGCTGCCTCCTGGCCTACTTCTTGGATAAAGGCGCAGATGAGTTACCATACTTGAGGTGCCCCCTGCACATCATCTTCAAACTTACTCCTGTGGCCTATGGTTGCAAAGTGGAAACAATTACTCTGAATGTGGATGCTGTAGACACACATCGTGACAAGCCAACTCACAACTTCCCCAAGAGCCAAACCCCTGTAAGGATGAGAAGGAACAGCTTTACGCCTCTGTCCAGTTCGAACACAATAAGGCGTCCAAGAAATTACAGTGTTGGGAGCCGACCCCTCAAGCCCCTCAGCCCTCTCCGTGCTCTGGACATGCAAGAAGGGGCGGACCAGCCGAAGACCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTACAGTGTTGGGAGCCGAC
59.97
AGATTTGAGGCGTGGGGTTT
59.89
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTACAGTGTTGGGAGCCGAC
59.97
TGAGGCGTGGGGTTTATAGC
59.82
171
PCR template sequence:
GCGTCCAAGAAATTACAGTGTTGGGAGCCGACCCCTCAAGCCCCTCAGCCCTCTCCGTGCTCTGGACATGCAAGAAGGGGCGGACCAGCCGAAGACCCAAGTGCCTCCTGAAGAACTACCATGTCTGAGAATAGTACATTTTCCCCAGAAGACTGCAACAGCAGCTATAAACCCCACGCCTCAAATCTGCGAAGGGCAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
21
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-miR-199a-5p(1), mmu-let-7b-5p(1), mmu-miR-150-5p(1), mmu-let-7c-5p(1), mmu-miR-152-3p(1), mmu-miR-298-5p(1), mmu-miR-709(1), mmu-miR-326-3p(1), mmu-let-7d-5p(1), mmu-miR-149-5p(1), mmu-miR-182-5p(1), mmu-miR-382-5p(1), mmu-miR-98-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-484(1), mmu-miR-3470b(1), mmu-miR-338-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCCGAAGACCCAAGTGCCTCCTGAAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPFKFB2_1556_ORF_1
1.1358
0.276869385
0.999951965
1665
ORF sequence:
ATGTCTGAGAATAGTACATTTTCCCCAGAAGACTGCAACAGCAGCTATAAACCCCACGCCTCAAATCTGCGAAGGGCAGGGAAGACATGCTCATGGGCTTCCTATATGACCAACTCCCCAACACTCATTGTTATGATTGGCTTGCCAGCCCGGGGTAAAACTTATGTGTCTAAGAAACTAACACGCTACCTCAACTGGATTGGAGTACCCACCAAAGTGTTTAATCTTGGGGTATATCGACGTGAAGCAGTCAAGTCCTATCAGTCTTATGATTTCTTTCGACATGACAATGAAGAGGCTATGAAGATCCGCAAACAGTGTGCTCTGGTGGCACTGGAAGATGTTAAAGCCTATTTTACTGAAGAGAGTGGGCAGATTGCGGTGTTTGATGCCACCAATACCACTCGGGAGAGGAGGGACATGATTTTGAACTTTGCCAAGCAGAATGCCTTCAAGGTATTTTTTGTAGAATCTGTCTGTGATGATCCTGATGTCATTGCTGCCAATATTCTGGAGGTAAAAGTGTCGAGCCCTGACTACCCCGAAAGGAATAGGGAGAATGTGATGGAGGACTTCCTGAAGAGAATTGAGTGCTACAAGGTCACTTACCAGCCCCTTGACCCAGACAACTATGATAAGGATCTTTCTTTCATAAAGGTGATAAATGTAGGCCAGAGATTCCTGGTCAACAGAGTTCAGGACTACATCCAGAGTAAGATTGTCTACTACCTGATGAATATCCACGTCCATCCTCGCACCATCTACCTTTGCCGGCACGGCGAGAGCGAGTTCAACCTTTTGGGGAAGATTGGGGGTGACTCTGGCCTCTCCGTGCGAGGAAAGCAGTTTGCTCATGCTCTGAAGAAGTTTCTGGAGGAACAGGAGATCCAGGACCTTAAAGTGTGGACGAGCCAGTTGAAGAGGACAATTCAGACTGCTGAGTCTCTTGGGGTGACCTATGAGCAGTGGAAGATCCTCAATGAGATTGATGCTGGCGTGTGTGAGGAGATGACATATTCAGAGATTGAGCAACGGTACCCAGAGGAATTTGCACTCCGAGATCAAGAGAAGTATCTGTACCGATACCCTGGTGGGGAGTCCTACCAGGACCTGGTGCAGCGGCTGGAGCCTGTCATCATGGAGCTAGAGCGTCAAGGCAACATCCTCGTTATCTCTCACCAGGCTGTCATGCGCTGCCTCCTGGCCTACTTCTTGGATAAAGGCGCAGATGAGTTACCATACTTGAGGTGCCCCCTGCACATCATCTTCAAACTTACTCCTGTGGCCTATGGTTGCAAAGTGGAAACAATTACTCTGAATGTGGATGCTGTAGACACACATCGTGACAAGCCAACTCACAACTTCCCCAAGAGCCAAACCCCTGTAAGGATGAGAAGGAACAGCTTTACGCCTCTGTCCAGTTCGAACACAATAAGGCGTCCAAGAAATTACAGTGTTGGGAGCCGACCCCTCAAGCCCCTCAGCCCTCTCCGTGCTCTGGACATGCAAGAAGGGGCGGACCAGCCGAAGACCCAAGTGCCTCCTGAAGAACTACCATGTCTGAGAATAGTACATTTTCCCCAGAAGACTGCAACAGCAGCTATAAACCCCACGCCTCAAATCTGCGAAGGGCAGGGAAGACATGCTCATGGGCTTCCTATATGA
Peptide sequence:
MSENSTFSPEDCNSSYKPHASNLRRAGKTCSWASYMTNSPTLIVMIGLPARGKTYVSKKLTRYLNWIGVPTKVFNLGVYRREAVKSYQSYDFFRHDNEEAMKIRKQCALVALEDVKAYFTEESGQIAVFDATNTTRERRDMILNFAKQNAFKVFFVESVCDDPDVIAANILEVKVSSPDYPERNRENVMEDFLKRIECYKVTYQPLDPDNYDKDLSFIKVINVGQRFLVNRVQDYIQSKIVYYLMNIHVHPRTIYLCRHGESEFNLLGKIGGDSGLSVRGKQFAHALKKFLEEQEIQDLKVWTSQLKRTIQTAESLGVTYEQWKILNEIDAGVCEEMTYSEIEQRYPEEFALRDQEKYLYRYPGGESYQDLVQRLEPVIMELERQGNILVISHQAVMRCLLAYFLDKGADELPYLRCPLHIIFKLTPVAYGCKVETITLNVDAVDTHRDKPTHNFPKSQTPVRMRRNSFTPLSSSNTIRRPRNYSVGSRPLKPLSPLRALDMQEGADQPKTQVPPEELPCLRIVHFPQKTATAAINPTPQICEGQGRHAHGLPI
IRESfinder result
IRESfinder score
0.556927731
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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