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mmu_circ6820408C15Rik_372
Basic information of circular RNA
PanCircBase ID:
mmu_circ6820408C15Rik_372
mm39_Chr. Position ID:
chr2|152270844|152279563|+
Gene name:
6820408C15Rik
Transcript:
ENSMUST00000039961.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,5,6
Exon/intron offsets:
0,5111,8560
Genomic length:
8719
Exon/intron sizes in nt:
10,01,13,159
Flanking exon/introns:
chr2:152269915-152270844|chr2:152279563-152281529
Splice length:
372
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGGCCAGAGAAGAACTTGAAGCCATCTACTCTGCCTCCCCTCCGACAAGTCAAAGGCCGCAACAAAAGCAAGACGAAGAATCTGAATAAAATCCAACCAGTACAGTCCCAGGTCTCTGTAGAGATGGCAAACTCAACAAAGACTTCAGGAGGACTTCGAAGAAGGGACCAAACGCACCACGGGAAAGTGCAGGCCAAGGTCCGGCTGATGAGGTCGATGCTTCGAAACCAGCGGACCTCGCTCCAGGAGCTCTACAGCCACGAAGGCTACCTCAGCAAGCTCAACAAGGAGCTGATCAAGGCCATCCTGGACACTGAGGACAGCGTGGCCTTGAGCGTGCGTGAAATGCTACAGCAGCAGAGTATCCTCGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAGGAGCTGATCAAGGCC
60.03
TCGTCTTGCTTTTGTTGCGG
59.97
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGGAGCTGATCAAGGCCA
60.03
TCGTCTTGCTTTTGTTGCGG
59.97
164
PCR template sequence:
CAGCAAGCTCAACAAGGAGCTGATCAAGGCCATCCTGGACACTGAGGACAGCGTGGCCTTGAGCGTGCGTGAAATGCTACAGCAGCAGAGTATCCTCGGGGGGCCAGAGAAGAACTTGAAGCCATCTACTCTGCCTCCCCTCCGACAAGTCAAAGGCCGCAACAAAAGCAAGACGAAGAATCTGAATAAAATCCAACCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-135a-5p(1), mmu-miR-709(1)
siRNAs for circular RNA silencing
Junction sequence
GAGTATCCTCGGGGGGCCAGAGAAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC6820408C15RIK_372_ORF_1
1.1945
0.469497465
0.966487431
621
ORF sequence:
ATGGCAAACTCAACAAAGACTTCAGGAGGACTTCGAAGAAGGGACCAAACGCACCACGGGAAAGTGCAGGCCAAGGTCCGGCTGATGAGGTCGATGCTTCGAAACCAGCGGACCTCGCTCCAGGAGCTCTACAGCCACGAAGGCTACCTCAGCAAGCTCAACAAGGAGCTGATCAAGGCCATCCTGGACACTGAGGACAGCGTGGCCTTGAGCGTGCGTGAAATGCTACAGCAGCAGAGTATCCTCGGGGGGCCAGAGAAGAACTTGAAGCCATCTACTCTGCCTCCCCTCCGACAAGTCAAAGGCCGCAACAAAAGCAAGACGAAGAATCTGAATAAAATCCAACCAGTACAGTCCCAGGTCTCTGTAGAGATGGCAAACTCAACAAAGACTTCAGGAGGACTTCGAAGAAGGGACCAAACGCACCACGGGAAAGTGCAGGCCAAGGTCCGGCTGATGAGGTCGATGCTTCGAAACCAGCGGACCTCGCTCCAGGAGCTCTACAGCCACGAAGGCTACCTCAGCAAGCTCAACAAGGAGCTGATCAAGGCCATCCTGGACACTGAGGACAGCGTGGCCTTGAGCGTGCGTGAAATGCTACAGCAGCAGAGTATCCTCGGG
Peptide sequence:
MANSTKTSGGLRRRDQTHHGKVQAKVRLMRSMLRNQRTSLQELYSHEGYLSKLNKELIKAILDTEDSVALSVREMLQQQSILGGPEKNLKPSTLPPLRQVKGRNKSKTKNLNKIQPVQSQVSVEMANSTKTSGGLRRRDQTHHGKVQAKVRLMRSMLRNQRTSLQELYSHEGYLSKLNKELIKAILDTEDSVALSVREMLQQQSILG
IRESfinder result
IRESfinder score
0.258261161
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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