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mmu_circArid1b_514_1
Basic information of circular RNA
PanCircBase ID:
mmu_circArid1b_514_1
mm39_Chr. Position ID:
chr17|5147848|5293346|+
Gene name:
Arid1b
Transcript:
ENSMUST00000092723.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,29340,145254
Genomic length:
145498
Exon/intron sizes in nt:
15,91,11,244
Flanking exon/introns:
chr17:5091049-5147848|chr17:5293346-5314306
Splice length:
514
Other database IDs:
circAtlas: mmu-Arid1b_0021
circBase: hsa_circ_0078400, circAtlas: hsa-ARID1B_0016
Human Ortholog IDs:
Mature spliced Sequence:
ATGCCACCGCAGTACGGACAGCAAGCTGTGAGTGGCTACTGCCAGCAAGGCCAGCAGCCATACTACAACCAGCAGCCGCAGCCCTCGCACCTCCCGCCCCAGGCACAGTACCTGCAGCCGGCGGCGGCGCAGTCCCAGCAGAGGTACCAGCCACAGCAGGACATGTCTCAAGAAGGCTATGGAACTAGATCTCAGCCTCCTCTGGCCCCTGGAAAATCCAACCATGAAGACTTGAATTTAATTCAACAGGAAAGACCATCGAGTCTACCAGACCTGTCTGGCTCCATCGATGACCTCCCCACGGGAACAGAAGCAACTCTGAGCTCAGCAGTCAGTGCATCCGGGTCTACAAGCAGCCAGGGAGATCAGAGCAACCCAGCGCAGTCTCCTTTCTCCCCACATGCATCACCTCACCTCTCCAGCATCCCTGGAGGGCCGTCACCTTCTCCTGTTGGCTCTCCTGTGGGAAGCAACCAATCGAGGTCTGGTCCGATCTCCCCTGCGAGTATTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCTGTTGGCTCTCCTGTG
60.04
GCGGCTGCTGGTTGTAGTAT
60.46
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCCTGTTGGCTCTCCTGT
60.18
GCGGCTGCTGGTTGTAGTAT
60.46
149
PCR template sequence:
CTCTCCAGCATCCCTGGAGGGCCGTCACCTTCTCCTGTTGGCTCTCCTGTGGGAAGCAACCAATCGAGGTCTGGTCCGATCTCCCCTGCGAGTATTCCAGATGCCACCGCAGTACGGACAGCAAGCTGTGAGTGGCTACTGCCAGCAAGGCCAGCAGCCATACTACAACCAGCAGCCGCAGCCCTCGCACCTCCCGCCCC
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-370-3p(1), mmu-miR-673-5p(1), mmu-miR-188-3p(1), mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCGAGTATTCCAGATGCCACCGCAGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARID1B_514_1_ORF_1
0.8895
0.159719807
0.891474081
702
ORF sequence:
ATGCCACCGCAGTACGGACAGCAAGCTGTGAGTGGCTACTGCCAGCAAGGCCAGCAGCCATACTACAACCAGCAGCCGCAGCCCTCGCACCTCCCGCCCCAGGCACAGTACCTGCAGCCGGCGGCGGCGCAGTCCCAGCAGAGGTACCAGCCACAGCAGGACATGTCTCAAGAAGGCTATGGAACTAGATCTCAGCCTCCTCTGGCCCCTGGAAAATCCAACCATGAAGACTTGAATTTAATTCAACAGGAAAGACCATCGAGTCTACCAGACCTGTCTGGCTCCATCGATGACCTCCCCACGGGAACAGAAGCAACTCTGAGCTCAGCAGTCAGTGCATCCGGGTCTACAAGCAGCCAGGGAGATCAGAGCAACCCAGCGCAGTCTCCTTTCTCCCCACATGCATCACCTCACCTCTCCAGCATCCCTGGAGGGCCGTCACCTTCTCCTGTTGGCTCTCCTGTGGGAAGCAACCAATCGAGGTCTGGTCCGATCTCCCCTGCGAGTATTCCAGATGCCACCGCAGTACGGACAGCAAGCTGTGAGTGGCTACTGCCAGCAAGGCCAGCAGCCATACTACAACCAGCAGCCGCAGCCCTCGCACCTCCCGCCCCAGGCACAGTACCTGCAGCCGGCGGCGGCGCAGTCCCAGCAGAGGTACCAGCCACAGCAGGACATGTCTCAAGAAGGCTATGGAACTAG
Peptide sequence:
MPPQYGQQAVSGYCQQGQQPYYNQQPQPSHLPPQAQYLQPAAAQSQQRYQPQQDMSQEGYGTRSQPPLAPGKSNHEDLNLIQQERPSSLPDLSGSIDDLPTGTEATLSSAVSASGSTSSQGDQSNPAQSPFSPHASPHLSSIPGGPSPSPVGSPVGSNQSRSGPISPASIPDATAVRTASCEWLLPARPAAILQPAAAALAPPAPGTVPAAGGGAVPAEVPATAGHVSRRLWN
IRESfinder result
IRESfinder score
0.361246297
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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