top of page
mmu_circBrwd1_564
Basic information of circular RNA
PanCircBase ID:
mmu_circBrwd1_564
mm39_Chr. Position ID:
chr16|95855031|95862299|-
Gene name:
Brwd1
Transcript:
ENSMUST00000099502.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
14,13,12,11,10,9
Exon/intron offsets:
0,2283,3631,4851,5750,7167
Genomic length:
7268
Exon/intron sizes in nt:
15,19,94,11,01,71,101
Flanking exon/introns:
chr16:95853859-95855031|chr16:95862299-95865949
Splice length:
564
Other database IDs:
circAtlas: mmu-Brwd1_0003
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TTTAGCCCGATGGCCAAAGGACCTCAGCGGTACATGGTTTCTACGGGCGCTGATGGCACTGTTTGCTTCTGGCAGTGGGATTTAGAGTCCTTGAAGTTCAGTCCACGACCCCTGAAGTTCACGGAAAAGCCAAGGCCTGGTGTTCAGATGCTGTGTTCTTCATTTAGCGTTGGTGGTATGTTTTTAGCTACAGGTAGTACTGATCATGTAATCAGAATGTATTTTTTGGGATTCGACGCACCTGAAAAAATCGCCGAGCTTGAAAGCCACACTGACAAAGTTGATAGTATCCAGTTTTGTAACAATGGTGACCGGTTCTTAAGTGGTAGCCGAGATGGAACAGCACGGATCTGGAGGTTTGAGCAGTTGGAATGGAGAAGCATTTTACTGGACATGTCTGCCAGGATCTCGGGAGACACATCTTCAGAAGAAGAGAGGTTTATGAAACCCAAAGTTACAATGATTGCTTGGAACCAGGATGATAGCACCGTGGTCACAGCCGTGAATGATCATGTCCTCAAGGTGTGGAGTTCCTACACTGGACAGCTGCTTCATAACTTACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGGATGATAGCACCGTGG
60.25
GCGCCCGTAGAAACCATGTA
60.46
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGATGATAGCACCGTGGT
59.53
GCGCCCGTAGAAACCATGTA
60.46
140
PCR template sequence:
TGCTTGGAACCAGGATGATAGCACCGTGGTCACAGCCGTGAATGATCATGTCCTCAAGGTGTGGAGTTCCTACACTGGACAGCTGCTTCATAACTTACTGTTTAGCCCGATGGCCAAAGGACCTCAGCGGTACATGGTTTCTACGGGCGCTGATGGCACTGTTTGCTTCTGGCAGTGGGATTTAGAGTCCTTGAAGTTCA
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-9-5p(1), mmu-miR-382-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCATAACTTACTGTTTAGCCCGATGG
siRNA sets
CATCGGGCTAAACAGTAAG, ATCGGGCTAAACAGTAAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRWD1_564_ORF_1
0.678
0.141162917
0.990468322
1119
ORF sequence:
ATGGCCAAAGGACCTCAGCGGTACATGGTTTCTACGGGCGCTGATGGCACTGTTTGCTTCTGGCAGTGGGATTTAGAGTCCTTGAAGTTCAGTCCACGACCCCTGAAGTTCACGGAAAAGCCAAGGCCTGGTGTTCAGATGCTGTGTTCTTCATTTAGCGTTGGTGGTATGTTTTTAGCTACAGGTAGTACTGATCATGTAATCAGAATGTATTTTTTGGGATTCGACGCACCTGAAAAAATCGCCGAGCTTGAAAGCCACACTGACAAAGTTGATAGTATCCAGTTTTGTAACAATGGTGACCGGTTCTTAAGTGGTAGCCGAGATGGAACAGCACGGATCTGGAGGTTTGAGCAGTTGGAATGGAGAAGCATTTTACTGGACATGTCTGCCAGGATCTCGGGAGACACATCTTCAGAAGAAGAGAGGTTTATGAAACCCAAAGTTACAATGATTGCTTGGAACCAGGATGATAGCACCGTGGTCACAGCCGTGAATGATCATGTCCTCAAGGTGTGGAGTTCCTACACTGGACAGCTGCTTCATAACTTACTGTTTAGCCCGATGGCCAAAGGACCTCAGCGGTACATGGTTTCTACGGGCGCTGATGGCACTGTTTGCTTCTGGCAGTGGGATTTAGAGTCCTTGAAGTTCAGTCCACGACCCCTGAAGTTCACGGAAAAGCCAAGGCCTGGTGTTCAGATGCTGTGTTCTTCATTTAGCGTTGGTGGTATGTTTTTAGCTACAGGTAGTACTGATCATGTAATCAGAATGTATTTTTTGGGATTCGACGCACCTGAAAAAATCGCCGAGCTTGAAAGCCACACTGACAAAGTTGATAGTATCCAGTTTTGTAACAATGGTGACCGGTTCTTAAGTGGTAGCCGAGATGGAACAGCACGGATCTGGAGGTTTGAGCAGTTGGAATGGAGAAGCATTTTACTGGACATGTCTGCCAGGATCTCGGGAGACACATCTTCAGAAGAAGAGAGGTTTATGAAACCCAAAGTTACAATGATTGCTTGGAACCAGGATGATAGCACCGTGGTCACAGCCGTGAATGATCATGTCCTCAAGGTGTGGAGTTCCTACACTGGACAGCTGCTTCATAACTTACTG
Peptide sequence:
MAKGPQRYMVSTGADGTVCFWQWDLESLKFSPRPLKFTEKPRPGVQMLCSSFSVGGMFLATGSTDHVIRMYFLGFDAPEKIAELESHTDKVDSIQFCNNGDRFLSGSRDGTARIWRFEQLEWRSILLDMSARISGDTSSEEERFMKPKVTMIAWNQDDSTVVTAVNDHVLKVWSSYTGQLLHNLLFSPMAKGPQRYMVSTGADGTVCFWQWDLESLKFSPRPLKFTEKPRPGVQMLCSSFSVGGMFLATGSTDHVIRMYFLGFDAPEKIAELESHTDKVDSIQFCNNGDRFLSGSRDGTARIWRFEQLEWRSILLDMSARISGDTSSEEERFMKPKVTMIAWNQDDSTVVTAVNDHVLKVWSSYTGQLLHNLL
IRESfinder result
IRESfinder score
0.531862455
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page