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mmu_circBcas3_416
Basic information of circular RNA
PanCircBase ID:
mmu_circBcas3_416
mm39_Chr. Position ID:
chr11|85400253|85422769|+
Gene name:
Bcas3
Transcript:
ENSMUST00000108061.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
16,17
Exon/intron offsets:
0,22365
Genomic length:
22516
Exon/intron sizes in nt:
2,65,151
Flanking exon/introns:
chr11:85386787-85400253|chr11:85422769-85434753
Splice length:
416
Other database IDs:
CIRCpedia: MMU_CIRCpedia_32083, circAtlas: mmu-Bcas3_0031
circBase: hsa_circ_0107318, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_21778
Human Ortholog IDs:
Mature spliced Sequence:
GTTCAGGACATCTGTTTCAGCCATGATTGTCGTTGGGTGGTGGTCAGTACCCTCCGGGGTACGTCCCACGTTTTCCCCATCAATCCTTATGGTGGCCAGCCTTGTGTCCGCACACACATGTCACCACGAGTAGTCAATCGCATGAGCCGTTTCCAGAAAAGTGCTGGGCTGGAAGAGATTGAACAAGAGCTGACATCTAAGCAAGGCGGCCGCTGTAGTCCTGTTCCAGGCCTGTCCAGCAGCCCTTCTGGCTCCCCGCTGCATGGGAAGCTGACCAGCCAAGACTCTTACAATAACTTTACAAACAACAACCCTGGCAATCCCCGGCTTTCTCCCCTCCCCAGCTTGATGGTAGTGACGCCTCTTGCGCAAATCAAACAGCCAATGACACTGGGAACCATCACGAAGCGAACAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGTAGTGACGCCTCTTGC
60.11
TGATGGGGAAAACGTGGGAC
60.25
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTGATGGTAGTGACGCCT
60.11
TGATGGGGAAAACGTGGGAC
60.25
155
PCR template sequence:
GCAATCCCCGGCTTTCTCCCCTCCCCAGCTTGATGGTAGTGACGCCTCTTGCGCAAATCAAACAGCCAATGACACTGGGAACCATCACGAAGCGAACAGGGTTCAGGACATCTGTTTCAGCCATGATTGTCGTTGGGTGGTGGTCAGTACCCTCCGGGGTACGTCCCACGTTTTCCCCATCAATCCTTATGGTGGCCAGC
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-320-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
CGAAGCGAACAGGGTTCAGGACATCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBCAS3_416_ORF_1
0.7387
0.128189545
0.438487666
432
ORF sequence:
ATGTCACCACGAGTAGTCAATCGCATGAGCCGTTTCCAGAAAAGTGCTGGGCTGGAAGAGATTGAACAAGAGCTGACATCTAAGCAAGGCGGCCGCTGTAGTCCTGTTCCAGGCCTGTCCAGCAGCCCTTCTGGCTCCCCGCTGCATGGGAAGCTGACCAGCCAAGACTCTTACAATAACTTTACAAACAACAACCCTGGCAATCCCCGGCTTTCTCCCCTCCCCAGCTTGATGGTAGTGACGCCTCTTGCGCAAATCAAACAGCCAATGACACTGGGAACCATCACGAAGCGAACAGGGTTCAGGACATCTGTTTCAGCCATGATTGTCGTTGGGTGGTGGTCAGTACCCTCCGGGGTACGTCCCACGTTTTCCCCATCAATCCTTATGGTGGCCAGCCTTGTGTCCGCACACACATGTCACCACGAGTAG
Peptide sequence:
MSPRVVNRMSRFQKSAGLEEIEQELTSKQGGRCSPVPGLSSSPSGSPLHGKLTSQDSYNNFTNNNPGNPRLSPLPSLMVVTPLAQIKQPMTLGTITKRTGFRTSVSAMIVVGWWSVPSGVRPTFSPSILMVASLVSAHTCHHE
IRESfinder result
IRESfinder score
0.458406996
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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