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mmu_circBcas3_550
Basic information of circular RNA
PanCircBase ID:
mmu_circBcas3_550
mm39_Chr. Position ID:
chr11|85386653|85422769|+
Gene name:
Bcas3
Transcript:
ENSMUST00000108061.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
15,16,17
Exon/intron offsets:
0,13600,35965
Genomic length:
36116
Exon/intron sizes in nt:
13,42,65,151
Flanking exon/introns:
chr11:85373562-85386653|chr11:85422769-85434753
Splice length:
550
Other database IDs:
CIRCpedia: MMU_CIRCpedia_32082, circAtlas: mmu-Bcas3_0019
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_67272
Human Ortholog IDs:
Mature spliced Sequence:
GAATGCTTTTAGTCACAACAGATACTCTTGGCCATGACTTTCATGTCTTCCAAATCCTGACTCATCCTTGGTCATCATCACAGTGTGCTGTCCATCATCTGTACACACTTCACAGGGGAGAGACCGAGGCCAAAGTTCAGGACATCTGTTTCAGCCATGATTGTCGTTGGGTGGTGGTCAGTACCCTCCGGGGTACGTCCCACGTTTTCCCCATCAATCCTTATGGTGGCCAGCCTTGTGTCCGCACACACATGTCACCACGAGTAGTCAATCGCATGAGCCGTTTCCAGAAAAGTGCTGGGCTGGAAGAGATTGAACAAGAGCTGACATCTAAGCAAGGCGGCCGCTGTAGTCCTGTTCCAGGCCTGTCCAGCAGCCCTTCTGGCTCCCCGCTGCATGGGAAGCTGACCAGCCAAGACTCTTACAATAACTTTACAAACAACAACCCTGGCAATCCCCGGCTTTCTCCCCTCCCCAGCTTGATGGTAGTGACGCCTCTTGCGCAAATCAAACAGCCAATGACACTGGGAACCATCACGAAGCGAACAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCGCAAATCAAACAGCCAA
59.9
AGCACACTGTGATGATGACCA
59.65
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGCGCAAATCAAACAGCCA
59.9
AGCACACTGTGATGATGACCA
59.65
141
PCR template sequence:
GCAATCCCCGGCTTTCTCCCCTCCCCAGCTTGATGGTAGTGACGCCTCTTGCGCAAATCAAACAGCCAATGACACTGGGAACCATCACGAAGCGAACAGGGAATGCTTTTAGTCACAACAGATACTCTTGGCCATGACTTTCATGTCTTCCAAATCCTGACTCATCCTTGGTCATCATCACAGTGTGCTGTCCATCATCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-122-5p(1), 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
CGAAGCGAACAGGGAATGCTTTTAGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBCAS3_550_ORF_1
0.7356
0.118338129
0.690934548
585
ORF sequence:
ATGCTTTTAGTCACAACAGATACTCTTGGCCATGACTTTCATGTCTTCCAAATCCTGACTCATCCTTGGTCATCATCACAGTGTGCTGTCCATCATCTGTACACACTTCACAGGGGAGAGACCGAGGCCAAAGTTCAGGACATCTGTTTCAGCCATGATTGTCGTTGGGTGGTGGTCAGTACCCTCCGGGGTACGTCCCACGTTTTCCCCATCAATCCTTATGGTGGCCAGCCTTGTGTCCGCACACACATGTCACCACGAGTAGTCAATCGCATGAGCCGTTTCCAGAAAAGTGCTGGGCTGGAAGAGATTGAACAAGAGCTGACATCTAAGCAAGGCGGCCGCTGTAGTCCTGTTCCAGGCCTGTCCAGCAGCCCTTCTGGCTCCCCGCTGCATGGGAAGCTGACCAGCCAAGACTCTTACAATAACTTTACAAACAACAACCCTGGCAATCCCCGGCTTTCTCCCCTCCCCAGCTTGATGGTAGTGACGCCTCTTGCGCAAATCAAACAGCCAATGACACTGGGAACCATCACGAAGCGAACAGGGAATGCTTTTAGTCACAACAGATACTCTTGGCCATGA
Peptide sequence:
MLLVTTDTLGHDFHVFQILTHPWSSSQCAVHHLYTLHRGETEAKVQDICFSHDCRWVVVSTLRGTSHVFPINPYGGQPCVRTHMSPRVVNRMSRFQKSAGLEEIEQELTSKQGGRCSPVPGLSSSPSGSPLHGKLTSQDSYNNFTNNNPGNPRLSPLPSLMVVTPLAQIKQPMTLGTITKRTGNAFSHNRYSWP
IRESfinder result
IRESfinder score
0.516421082
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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