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mmu_circIqgap2_538
Basic information of circular RNA
PanCircBase ID:
mmu_circIqgap2_538
mm39_Chr. Position ID:
chr13|95852564|95866058|-
Gene name:
Iqgap2
Transcript:
ENSMUST00000068603.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
12,11,10,9
Exon/intron offsets:
0,5456,8489,13406
Genomic length:
13494
Exon/intron sizes in nt:
125,161,164,88
Flanking exon/introns:
chr13:95844549-95852564|chr13:95866058-95867787
Splice length:
538
Other database IDs:
CIRCpedia: MMU_CIRCpedia_225747
circAtlas: hsa-IQGAP2_0013, CIRCpedia: HSA_CIRCpedia_169412
Human Ortholog IDs:
Mature spliced Sequence:
AACAGCTGTATTTCAGAGGAAGAGAGAGATGCGTATGAGGAGCTGCTGACCCAGGCAGAAATTCAAAGCAACATCAGTACCGTCAACAGGATGGCTGCTGTGGACCACATCAATGCTGTCCTTCAGGAAGGTGACCCCGAGAACACACTGCTTGCACTGAAGAAACCAGAAGCCCAGCTGCCAGCTGTCTATCCCTTTGCTGCTGTTATGTATCAAAATGAACTCTTCAACCTCCAGAAACAGAACACATCGAACTACTTGGCCCACGAGGAGCTCCTGATTGCCGTGGAAATGTTGTCTGCCGTTGCTCTGCTAAACCAGGCCTTGGAGAGCAGTGACCTCGTGGCTGTGCAGAACCAACTCAGAAGCCCCACCATAGGCTTCAACAATCTGGATGAGGCACACGTGGACCGTTATGCAGACGCACTACTCTCTGTTAAACAAGAAGCATTATCCCAAGGGCAAGATACCTTAAGCTGGAATGAAATTCAGAATTGTATCGATATGATTAATAACCAGATTCAAGAAGAAAATGACC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGCATTATCCCAAGGGCA
59.43
GCAGCTCCTCATACGCATCT
59.97
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGCATTATCCCAAGGGCA
59.43
AGCAGCTCCTCATACGCATC
59.97
142
PCR template sequence:
AAACAAGAAGCATTATCCCAAGGGCAAGATACCTTAAGCTGGAATGAAATTCAGAATTGTATCGATATGATTAATAACCAGATTCAAGAAGAAAATGACCAACAGCTGTATTTCAGAGGAAGAGAGAGATGCGTATGAGGAGCTGCTGACCCAGGCAGAAATTCAAAGCAACATCAGTACCGTCAACAGGATGGCTGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-196a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1), mmu-miR-466d-3p(1), mmu-miR-1198-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGAAAATGACCAACAGCTGTATTT
siRNA sets
AATACAGCTGTTGGTCATT, ACAGCTGTTGGTCATTTTC, AAATACAGCTGTTGGTCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIQGAP2_538_ORF_1
1.237
0.345547749
0.913992347
543
ORF sequence:
ATGACCAACAGCTGTATTTCAGAGGAAGAGAGAGATGCGTATGAGGAGCTGCTGACCCAGGCAGAAATTCAAAGCAACATCAGTACCGTCAACAGGATGGCTGCTGTGGACCACATCAATGCTGTCCTTCAGGAAGGTGACCCCGAGAACACACTGCTTGCACTGAAGAAACCAGAAGCCCAGCTGCCAGCTGTCTATCCCTTTGCTGCTGTTATGTATCAAAATGAACTCTTCAACCTCCAGAAACAGAACACATCGAACTACTTGGCCCACGAGGAGCTCCTGATTGCCGTGGAAATGTTGTCTGCCGTTGCTCTGCTAAACCAGGCCTTGGAGAGCAGTGACCTCGTGGCTGTGCAGAACCAACTCAGAAGCCCCACCATAGGCTTCAACAATCTGGATGAGGCACACGTGGACCGTTATGCAGACGCACTACTCTCTGTTAAACAAGAAGCATTATCCCAAGGGCAAGATACCTTAAGCTGGAATGAAATTCAGAATTGTATCGATATGATTAATAACCAGATTCAAGAAGAAAATGAC
Peptide sequence:
MTNSCISEEERDAYEELLTQAEIQSNISTVNRMAAVDHINAVLQEGDPENTLLALKKPEAQLPAVYPFAAVMYQNELFNLQKQNTSNYLAHEELLIAVEMLSAVALLNQALESSDLVAVQNQLRSPTIGFNNLDEAHVDRYADALLSVKQEALSQGQDTLSWNEIQNCIDMINNQIQEEND
IRESfinder result
IRESfinder score
0.57370086
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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