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mmu_circIqcb1_503
Basic information of circular RNA
PanCircBase ID:
mmu_circIqcb1_503
mm39_Chr. Position ID:
chr16|36655877|36668021|+
Gene name:
Iqcb1
Transcript:
ENSMUST00000114819.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,6,7,8
Exon/intron offsets:
0,4354,7843,11965
Genomic length:
12144
Exon/intron sizes in nt:
13,09,41,00,179
Flanking exon/introns:
chr16:36652353-36655877|chr16:36668021-36669988
Splice length:
503
Other database IDs:
CIRCpedia: MMU_CIRCpedia_226653
Human Ortholog IDs:
Mature spliced Sequence:
CCATTGCTGTGTGGGCTTAGAGCCAGGAGAAGATGGAGAAGAATTTTACAAGGAGTTACTTCCATCAGCTGCTGAAAATTTTCTTATCCTGGGGAGAAGGTTACAAACATGTTTCATCAATGCAACTAAGGGTGAAGAGCAAGATAAATTACTACATTTTTTCCAAATTGTGACTGATTCTCTCTTCTGGTTATTGGGAGGTCATGTTCAACTGATACAGAATGTACTGCAGAGTGATCATTTCTTACACTTGCTGCAAACTGACAATGTTCAGATAGGAGCTTCAGTCATGACTCTGCTACAGAATATACTACAGATCAACAGTGGTAATTTACTCAAAATAGAAGGAAAAGCCCTGCATTCTATTTTAGATGAAATTCTTTTCAAGCTTTTGTCAACTCCTAGTCCAGTCATAAGAAGTACTGCTACAAAGCTCCTGCTAGTACTGGCTGAATCCCATCAGGAAATTTTGATTTTACTGAGACTAAGTGCCTGCTATAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCCTGCTAGTACTGGCTG
59.9
GCAGCTGATGGAAGTAACTCCT
60.09
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCCTGCTAGTACTGGCTG
59.9
AGCAGCTGATGGAAGTAACTCC
60.09
144
PCR template sequence:
AGTCCAGTCATAAGAAGTACTGCTACAAAGCTCCTGCTAGTACTGGCTGAATCCCATCAGGAAATTTTGATTTTACTGAGACTAAGTGCCTGCTATAAAGCCATTGCTGTGTGGGCTTAGAGCCAGGAGAAGATGGAGAAGAATTTTACAAGGAGTTACTTCCATCAGCTGCTGAAAATTTTCTTATCCTGGGGAGAAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-223-3p(1), mmu-miR-149-5p(1), mmu-miR-207(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
GCCTGCTATAAAGCCATTGCTGTGTG
siRNA sets
ACAGCAATGGCTTTATAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIQCB1_503_ORF_1
0.9645
-0.10289319
0.099297268
234
ORF sequence:
ATGACTCTGCTACAGAATATACTACAGATCAACAGTGGTAATTTACTCAAAATAGAAGGAAAAGCCCTGCATTCTATTTTAGATGAAATTCTTTTCAAGCTTTTGTCAACTCCTAGTCCAGTCATAAGAAGTACTGCTACAAAGCTCCTGCTAGTACTGGCTGAATCCCATCAGGAAATTTTGATTTTACTGAGACTAAGTGCCTGCTATAAAGCCATTGCTGTGTGGGCTTAG
Peptide sequence:
MTLLQNILQINSGNLLKIEGKALHSILDEILFKLLSTPSPVIRSTATKLLLVLAESHQEILILLRLSACYKAIAVWA
IRESfinder result
IRESfinder score
0.786962598
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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