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mmu_circBraf_372
Basic information of circular RNA
PanCircBase ID:
mmu_circBraf_372
mm39_Chr. Position ID:
chr6|39641937|39654575|-
Gene name:
Braf
Transcript:
ENSMUST00000002487.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,1242,12374,12568
Genomic length:
12638
Exon/intron sizes in nt:
103,104,95,70
Flanking exon/introns:
chr6:39639086-39641937|chr6:39654575-39665177
Splice length:
372
Other database IDs:
circAtlas: hsa-BRAF_0029, CIRCpedia: HSA_CIRCpedia_57094
Human Ortholog IDs:
Mature spliced Sequence:
GCCTATGAAGAGTACACCAGCAAGCTAGATGCCCTTCAGCAAAGAGAACAGCAGCTTTTGGAATCCCTGGTTTTTCAAACTCCCACAGATGCATCACGGAACAACCCCAAGTCACCACAGAAACCTATCGTTAGAGTCTTCCTGCCCAACAAACAGAGGACAGTGGTACCCGCAAGATGTGGTGTTACAGTTCGAGACAGTCTAAAGAAAGCACTGATGATGAGAGGTCTCATCCCAGAATGCTGTGCTGTTTACAGAATTCAGGATGGAGAGAAGAAACCAATTGGCTGGGACACGGACATTTCCTGGCTTACTGGAGAGGAGTTACATGTTGAAGTACTGGAGAATGTCCCACTTACAACACACAACTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACACGGACATTTCCTGGCTT
59.89
CGTGATGCATCTGTGGGAGT
60.11
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACACGGACATTTCCTGGCT
60.32
CGTGATGCATCTGTGGGAGT
60.11
179
PCR template sequence:
GAAGAAACCAATTGGCTGGGACACGGACATTTCCTGGCTTACTGGAGAGGAGTTACATGTTGAAGTACTGGAGAATGTCCCACTTACAACACACAACTTTGCCTATGAAGAGTACACCAGCAAGCTAGATGCCCTTCAGCAAAGAGAACAGCAGCTTTTGGAATCCCTGGTTTTTCAAACTCCCACAGATGCATCACGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-30c-5p(1), mmu-miR-7a-5p(1), mmu-miR-138-5p(1), mmu-miR-30b-5p(1), mmu-miR-411-3p(1), mmu-miR-382-5p(1), mmu-miR-541-5p(1), mmu-miR-680(1), mmu-miR-1187(1)
siRNAs for circular RNA silencing
Junction sequence
AACACACAACTTTGCCTATGAAGAGT
siRNA sets
TCTTCATAGGCAAAGTTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRAF_372_ORF_1
0.9923
0.161702442
0.741957558
528
ORF sequence:
ATGATGAGAGGTCTCATCCCAGAATGCTGTGCTGTTTACAGAATTCAGGATGGAGAGAAGAAACCAATTGGCTGGGACACGGACATTTCCTGGCTTACTGGAGAGGAGTTACATGTTGAAGTACTGGAGAATGTCCCACTTACAACACACAACTTTGCCTATGAAGAGTACACCAGCAAGCTAGATGCCCTTCAGCAAAGAGAACAGCAGCTTTTGGAATCCCTGGTTTTTCAAACTCCCACAGATGCATCACGGAACAACCCCAAGTCACCACAGAAACCTATCGTTAGAGTCTTCCTGCCCAACAAACAGAGGACAGTGGTACCCGCAAGATGTGGTGTTACAGTTCGAGACAGTCTAAAGAAAGCACTGATGATGAGAGGTCTCATCCCAGAATGCTGTGCTGTTTACAGAATTCAGGATGGAGAGAAGAAACCAATTGGCTGGGACACGGACATTTCCTGGCTTACTGGAGAGGAGTTACATGTTGAAGTACTGGAGAATGTCCCACTTACAACACACAACTTT
Peptide sequence:
MMRGLIPECCAVYRIQDGEKKPIGWDTDISWLTGEELHVEVLENVPLTTHNFAYEEYTSKLDALQQREQQLLESLVFQTPTDASRNNPKSPQKPIVRVFLPNKQRTVVPARCGVTVRDSLKKALMMRGLIPECCAVYRIQDGEKKPIGWDTDISWLTGEELHVEVLENVPLTTHNF
IRESfinder result
IRESfinder score
0.521575488
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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