top of page
mmu_circBrwd3_446
Basic information of circular RNA
PanCircBase ID:
mmu_circBrwd3_446
mm39_Chr. Position ID:
chrX|107816916|107822020|-
Gene name:
Brwd3
Transcript:
ENSMUST00000150434.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
20,19,18
Exon/intron offsets:
0,1516,4936
Genomic length:
5104
Exon/intron sizes in nt:
9,41,84,168
Flanking exon/introns:
chrX:107815276-107816916|chrX:107822020-107823501
Splice length:
446
Other database IDs:
CIRCpedia: MMU_CIRCpedia_2505, circAtlas: mmu-Brwd3_0024
Human Ortholog IDs:
Mature spliced Sequence:
GTGACGGTGAGGTGGTAGAACAGGTAATTGGGCAGCAAACCAATGACCAAGAAGAAAGCATTCTTGATGGAATAATCAGGGAGTTACAGAGAGAACAAGATCTCAGATTAATTAATGAAGGAGATGTTCCACATTTTCCAATTAATAGATCATATTCTGTTAATGGTGCTCTGAGTAGTCCAAATATGGACATACCTTCTTCCCCAAATATTGGCCTTCGGCGTAGTGGCCAAATTGAAGGTGTTCGGCAGATGCACAACAATGCTCCCCGGAGCCAGATGGCCACTGAAAGAGATCTCATGGCCTGGAGCCGAAGAGTGGTGGTGAATGAGCTAAATAGTGGCGTTAGTAGGGTACAAGAAGAATGTCGAAATGCAAAAGGTGACCTAGAAGTTAGTCTTTATACTGTTGAAAAGAAGAAAAAGCCATCTTATCCTATCCAAAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGTACAAGAAGAATGTCGA
56.39
GTCATTGGTTTGCTGCCCAA
59.61
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGTACAAGAAGAATGTCGA
56.39
TTGGTCATTGGTTTGCTGCC
59.61
146
PCR template sequence:
TAGTAGGGTACAAGAAGAATGTCGAAATGCAAAAGGTGACCTAGAAGTTAGTCTTTATACTGTTGAAAAGAAGAAAAAGCCATCTTATCCTATCCAAAGAGTGACGGTGAGGTGGTAGAACAGGTAATTGGGCAGCAAACCAATGACCAAGAAGAAAGCATTCTTGATGGAATAATCAGGGAGTTACAGAGAGAACAAGA
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-miR-135a-5p(1), mmu-miR-29b-3p(1), mmu-miR-29c-3p(1), mmu-miR-149-5p(1), mmu-miR-382-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCTATCCAAAGAGTGACGGTGAGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRWD3_446_ORF_1
0.8293
0.159928044
0.258352805
279
ORF sequence:
ATGGACATACCTTCTTCCCCAAATATTGGCCTTCGGCGTAGTGGCCAAATTGAAGGTGTTCGGCAGATGCACAACAATGCTCCCCGGAGCCAGATGGCCACTGAAAGAGATCTCATGGCCTGGAGCCGAAGAGTGGTGGTGAATGAGCTAAATAGTGGCGTTAGTAGGGTACAAGAAGAATGTCGAAATGCAAAAGGTGACCTAGAAGTTAGTCTTTATACTGTTGAAAAGAAGAAAAAGCCATCTTATCCTATCCAAAGAGTGACGGTGAGGTGGTAG
Peptide sequence:
MDIPSSPNIGLRRSGQIEGVRQMHNNAPRSQMATERDLMAWSRRVVVNELNSGVSRVQEECRNAKGDLEVSLYTVEKKKKPSYPIQRVTVRW
IRESfinder result
IRESfinder score
0.362314405
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page