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mmu_circBrwd1_536
Basic information of circular RNA
PanCircBase ID:
mmu_circBrwd1_536
mm39_Chr. Position ID:
chr16|95858662|95866171|-
Gene name:
Brwd1
Transcript:
ENSMUST00000099502.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
12,11,10,9,8
Exon/intron offsets:
0,1220,2119,3536,7287
Genomic length:
7509
Exon/intron sizes in nt:
41,10,17,11,01,222
Flanking exon/introns:
chr16:95857413-95858662|chr16:95866171-95867224
Splice length:
536
Other database IDs:
circAtlas: mmu-Brwd1_0084
Human Ortholog IDs:
Mature spliced Sequence:
GGTTCAGATGATTGCTTGGTAAAGATTTGGTCAACACATAATGGCCGCTTGTTGTCTACGTTAAGAGGCCATTCTGCAGAGATTTCAGACATGGCTGTGAACTACGAGAACACGCTGATTGCTGCAGGAAGCTGTGATAAGATCATTAGGGTGTGGTGCTTGAGGACCTGCGCCCCAGTTGCTGTGCTGCAAGGACACACGGGGTCAATCACATCTCTGCAGTTTAGCCCGATGGCCAAAGGACCTCAGCGGTACATGGTTTCTACGGGCGCTGATGGCACTGTTTGCTTCTGGCAGTGGGATTTAGAGTCCTTGAAGTTCAGTCCACGACCCCTGAAGTTCACGGAAAAGCCAAGGCCTGGTGTTCAGATGCTGTGTTCTTCATTTAGCGTTGGTGGTATGTTTTTAGCTACAGGTAGTACTGATCATGTAATCAGAATGTATTTTTTGGGATTCGACGCACCTGAAAAAATCGCCGAGCTTGAAAGCCACACTGACAAAGTTGATAGTATCCAGTTTTGTAACAATGGTGACCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTTTGGGATTCGACGCACC
59.41
GCGGCCATTATGTGTTGACC
59.9
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTTGGGATTCGACGCACCT
60.25
TGCAGAATGGCCTCTTAACGT
60
169
PCR template sequence:
GAATGTATTTTTTGGGATTCGACGCACCTGAAAAAATCGCCGAGCTTGAAAGCCACACTGACAAAGTTGATAGTATCCAGTTTTGTAACAATGGTGACCGGGTTCAGATGATTGCTTGGTAAAGATTTGGTCAACACATAATGGCCGCTTGTTGTCTACGTTAAGAGGCCATTCTGCAGAGATTTCAGACATGGCTGTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAATGGTGACCGGGTTCAGATGATT
siRNA sets
AATCATCTGAACCCGGTCA, TCATCTGAACCCGGTCACC, ATCATCTGAACCCGGTCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRWD1_536_ORF_1
0.7313
0.117388549
0.48724185
468
ORF sequence:
ATGGCTGTGAACTACGAGAACACGCTGATTGCTGCAGGAAGCTGTGATAAGATCATTAGGGTGTGGTGCTTGAGGACCTGCGCCCCAGTTGCTGTGCTGCAAGGACACACGGGGTCAATCACATCTCTGCAGTTTAGCCCGATGGCCAAAGGACCTCAGCGGTACATGGTTTCTACGGGCGCTGATGGCACTGTTTGCTTCTGGCAGTGGGATTTAGAGTCCTTGAAGTTCAGTCCACGACCCCTGAAGTTCACGGAAAAGCCAAGGCCTGGTGTTCAGATGCTGTGTTCTTCATTTAGCGTTGGTGGTATGTTTTTAGCTACAGGTAGTACTGATCATGTAATCAGAATGTATTTTTTGGGATTCGACGCACCTGAAAAAATCGCCGAGCTTGAAAGCCACACTGACAAAGTTGATAGTATCCAGTTTTGTAACAATGGTGACCGGGTTCAGATGATTGCTTGGTAA
Peptide sequence:
MAVNYENTLIAAGSCDKIIRVWCLRTCAPVAVLQGHTGSITSLQFSPMAKGPQRYMVSTGADGTVCFWQWDLESLKFSPRPLKFTEKPRPGVQMLCSSFSVGGMFLATGSTDHVIRMYFLGFDAPEKIAELESHTDKVDSIQFCNNGDRVQMIAW
IRESfinder result
IRESfinder score
0.476807369
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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