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mmu_circBraf_421
Basic information of circular RNA
PanCircBase ID:
mmu_circBraf_421
mm39_Chr. Position ID:
chr6|39591065|39600644|-
Gene name:
Braf
Transcript:
ENSMUST00000002487.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
21,20,19
Exon/intron offsets:
0,1529,9447
Genomic length:
9579
Exon/intron sizes in nt:
15,41,35,132
Flanking exon/introns:
chr6:39587338-39591065|chr6:39600644-39604655
Splice length:
421
Other database IDs:
CIRCpedia: MMU_CIRCpedia_214012, circAtlas: mmu-Braf_0039
circAtlas: hsa-BRAF_0109
Human Ortholog IDs:
Mature spliced Sequence:
GCACCAGAAGTAATCAGAATGCAAGATAAAAACCCGTATAGCTTTCAGTCAGACGTGTATGCGTTTGGGATTGTTCTGTACGAACTGATGACCGGCCAGCTACCTTATTCAAACATCAACAACAGGGATCAGATAATTTTTATGGTGGGACGAGGATACCTATCTCCAGATCTCAGTAAGGTACGGAGTAACTGTCCAAAAGCCATGAAGAGATTAATGGCAGAGTGCCTCAAAAAGAAAAGAGACGAGAGACCACTCTTTCCCCAAATTCTCGCCTCCATTGAGCTGCTGGCCCGCTCATTGCCAAAAATTCACCGCAGTGCATCAGAACCTTCCTTGAATCGGGCTGGTTTCCAAACAGAAGATTTTAGTCTGTATGCTTGTGCTTCTCCGAAAACACCCATCCAAGCAGGGGGATATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAATCGGGCTGGTTTCCAA
59.89
GCCGGTCATCAGTTCGTACA
60.11
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCGGGCTGGTTTCCAAACA
60.18
GCCGGTCATCAGTTCGTACA
60.11
177
PCR template sequence:
GCATCAGAACCTTCCTTGAATCGGGCTGGTTTCCAAACAGAAGATTTTAGTCTGTATGCTTGTGCTTCTCCGAAAACACCCATCCAAGCAGGGGGATATGGCACCAGAAGTAATCAGAATGCAAGATAAAAACCCGTATAGCTTTCAGTCAGACGTGTATGCGTTTGGGATTGTTCTGTACGAACTGATGACCGGCCAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-182-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGGGGGATATGGCACCAGAAGTAA
siRNA sets
TACTTCTGGTGCCATATCC, CTTCTGGTGCCATATCCCC, TTCTGGTGCCATATCCCCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRAF_421_ORF_1
0.7137
0.126749619
0.484560591
465
ORF sequence:
ATGCTTGTGCTTCTCCGAAAACACCCATCCAAGCAGGGGGATATGGCACCAGAAGTAATCAGAATGCAAGATAAAAACCCGTATAGCTTTCAGTCAGACGTGTATGCGTTTGGGATTGTTCTGTACGAACTGATGACCGGCCAGCTACCTTATTCAAACATCAACAACAGGGATCAGATAATTTTTATGGTGGGACGAGGATACCTATCTCCAGATCTCAGTAAGGTACGGAGTAACTGTCCAAAAGCCATGAAGAGATTAATGGCAGAGTGCCTCAAAAAGAAAAGAGACGAGAGACCACTCTTTCCCCAAATTCTCGCCTCCATTGAGCTGCTGGCCCGCTCATTGCCAAAAATTCACCGCAGTGCATCAGAACCTTCCTTGAATCGGGCTGGTTTCCAAACAGAAGATTTTAGTCTGTATGCTTGTGCTTCTCCGAAAACACCCATCCAAGCAGGGGGATAT
Peptide sequence:
MLVLLRKHPSKQGDMAPEVIRMQDKNPYSFQSDVYAFGIVLYELMTGQLPYSNINNRDQIIFMVGRGYLSPDLSKVRSNCPKAMKRLMAECLKKKRDERPLFPQILASIELLARSLPKIHRSASEPSLNRAGFQTEDFSLYACASPKTPIQAGGY
IRESfinder result
IRESfinder score
0.644207241
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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