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mmu_circBcas3_396
Basic information of circular RNA
PanCircBase ID:
mmu_circBcas3_396
mm39_Chr. Position ID:
chr11|85467607|85474820|+
Gene name:
Bcas3
Transcript:
ENSMUST00000108061.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
22,23,24
Exon/intron offsets:
0,4260,7115
Genomic length:
7213
Exon/intron sizes in nt:
101,197,98
Flanking exon/introns:
chr11:85449997-85467607|chr11:85474820-85692610
Splice length:
396
Other database IDs:
circBase: mmu_circ_0003491, CIRCpedia: MMU_CIRCpedia_32099, circAtlas: mmu-Bcas3_0012
circBase: hsa_circ_0045006, circAtlas: hsa-BCAS3_0013, CIRCpedia: HSA_CIRCpedia_21787
Human Ortholog IDs:
Mature spliced Sequence:
CTCTTCCCCCTGGAAGTCCTGGCCCCATTACTCGACATGGGTCCTATGACAGCTTAGCCTCTGACCATAGTGGACAGGAAGATGAAGAATGGCTTTCCCAGGTTGAAATTGTGACACACACCGGACCCCACAGGCGCCTGTGGATGGGCCCACAATTCCATTTCAAAACCATCCAAACCTCAGGCCAGACCACGGTCATATCAACTAGTTCTTCTGTGTTACAATCGCACGGACCTAGCGACACACCACAGCCGCTCTTGGACTTTGATACGGATGATCTAGATCTTAACAGCCTCAGGATCCAGCCTGTCCGCTCTGACCCAGTCAGCATGCCAGGGTCATCCCGTGCTGTCTCTGATCGGAGGGGAGTTTCCACAGTGACCGATGCTGCCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCAGCATGCCAGGGTCAT
60.08
TGGTCAGAGGCTAAGCTGTC
59.1
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCAGCATGCCAGGGTCATC
61.1
TGGTCAGAGGCTAAGCTGTC
59.1
140
PCR template sequence:
AGGATCCAGCCTGTCCGCTCTGACCCAGTCAGCATGCCAGGGTCATCCCGTGCTGTCTCTGATCGGAGGGGAGTTTCCACAGTGACCGATGCTGCCTCAGCTCTTCCCCCTGGAAGTCCTGGCCCCATTACTCGACATGGGTCCTATGACAGCTTAGCCTCTGACCATAGTGGACAGGAAGATGAAGAATGGCTTTCCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-103-3p(1), mmu-let-7b-5p(1), mmu-miR-676-3p(1), mmu-miR-107-3p(1), mmu-miR-540-3p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATGCTGCCTCAGCTCTTCCCCCTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBCAS3_396_ORF_1
0.6913
0.178505177
0.806889561
648
ORF sequence:
ATGGGCCCACAATTCCATTTCAAAACCATCCAAACCTCAGGCCAGACCACGGTCATATCAACTAGTTCTTCTGTGTTACAATCGCACGGACCTAGCGACACACCACAGCCGCTCTTGGACTTTGATACGGATGATCTAGATCTTAACAGCCTCAGGATCCAGCCTGTCCGCTCTGACCCAGTCAGCATGCCAGGGTCATCCCGTGCTGTCTCTGATCGGAGGGGAGTTTCCACAGTGACCGATGCTGCCTCAGCTCTTCCCCCTGGAAGTCCTGGCCCCATTACTCGACATGGGTCCTATGACAGCTTAGCCTCTGACCATAGTGGACAGGAAGATGAAGAATGGCTTTCCCAGGTTGAAATTGTGACACACACCGGACCCCACAGGCGCCTGTGGATGGGCCCACAATTCCATTTCAAAACCATCCAAACCTCAGGCCAGACCACGGTCATATCAACTAGTTCTTCTGTGTTACAATCGCACGGACCTAGCGACACACCACAGCCGCTCTTGGACTTTGATACGGATGATCTAGATCTTAACAGCCTCAGGATCCAGCCTGTCCGCTCTGACCCAGTCAGCATGCCAGGGTCATCCCGTGCTGTCTCTGATCGGAGGGGAGTTTCCACAGTGACCGATGCTGCCTCA
Peptide sequence:
MGPQFHFKTIQTSGQTTVISTSSSVLQSHGPSDTPQPLLDFDTDDLDLNSLRIQPVRSDPVSMPGSSRAVSDRRGVSTVTDAASALPPGSPGPITRHGSYDSLASDHSGQEDEEWLSQVEIVTHTGPHRRLWMGPQFHFKTIQTSGQTTVISTSSSVLQSHGPSDTPQPLLDFDTDDLDLNSLRIQPVRSDPVSMPGSSRAVSDRRGVSTVTDAAS
IRESfinder result
IRESfinder score
0.457317414
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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