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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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Institute of Life sciences, Bhubaneswar, India

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