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mmu_circBcas3_689
Basic information of circular RNA
PanCircBase ID:
mmu_circBcas3_689
mm39_Chr. Position ID:
chr11|85422618|85467708|+
Gene name:
Bcas3
Transcript:
ENSMUST00000108061.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
17,18,19,20,21,22
Exon/intron offsets:
0,12135,22397,25530,27278,44989
Genomic length:
45090
Exon/intron sizes in nt:
151,45,125,166,101,101
Flanking exon/introns:
chr11:85400518-85422618|chr11:85467708-85471867
Splice length:
689
Other database IDs:
circAtlas: mmu-Bcas3_0017
circAtlas: hsa-BCAS3_0026
Human Ortholog IDs:
Mature spliced Sequence:
GGAAGCTGACCAGCCAAGACTCTTACAATAACTTTACAAACAACAACCCTGGCAATCCCCGGCTTTCTCCCCTCCCCAGCTTGATGGTAGTGACGCCTCTTGCGCAAATCAAACAGCCAATGACACTGGGAACCATCACGAAGCGAACAGGGCCTTATCTCTTTGGAGCGGGGTGTTTTTCCATAAAGGCTCCATGCAAAGTTAAATCACCTCCACAAATTTCTCCAAGCAAATCAATGGGCGGTGAGTTTTGCGTGGCTGCAGTGTTTGGGACTTCCAGGTCGTGGTTTGCAAACAACGCTGGTCTGAAACGGGAAAAAGATCAGTCCAAACAAGTTGTAGTTGAATCTCTTTACATCATCAGCTGCTACGGGACCTTAGTGGAGCACATGATTGAGCCCCGGCCGATCAGTACTGCTCCCAAGATAAGTGACGACACACCACTGGAGATAATGACGTCACCCCGTGCCAGCTGGACACTTGTTAGAACGCCTCAGTGGAATGAACTGCAGCCGCCATTCAATGCGAATCACCCTCTGCTCCTCGCTGCAGAAGCAGTGCAGTATTACCAGCTCCTGCTGGCCGGCTCTCTTCCCCCTGGAAGTCCTGGCCCCATTACTCGACATGGGTCCTATGACAGCTTAGCCTCTGACCATAGTGGACAGGAAGATGAAGAATGGCTTTCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCCCCATTACTCGACATG
59.82
GGCGTCACTACCATCAAGCT
60.11
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCCCCATTACTCGACATG
59.82
AGGCGTCACTACCATCAAGC
60.11
180
PCR template sequence:
TCTTCCCCCTGGAAGTCCTGGCCCCATTACTCGACATGGGTCCTATGACAGCTTAGCCTCTGACCATAGTGGACAGGAAGATGAAGAATGGCTTTCCCAGGGAAGCTGACCAGCCAAGACTCTTACAATAACTTTACAAACAACAACCCTGGCAATCCCCGGCTTTCTCCCCTCCCCAGCTTGATGGTAGTGACGCCTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-141-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-320-3p(1), mmu-miR-5101(1), mmu-miR-3087-3p(1), mmu-miR-540-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGGCTTTCCCAGGGAAGCTGACCAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBCAS3_689_ORF_1
0.7693
0.150492063
0.862527367
702
ORF sequence:
ATGGCTTTCCCAGGGAAGCTGACCAGCCAAGACTCTTACAATAACTTTACAAACAACAACCCTGGCAATCCCCGGCTTTCTCCCCTCCCCAGCTTGATGGTAGTGACGCCTCTTGCGCAAATCAAACAGCCAATGACACTGGGAACCATCACGAAGCGAACAGGGCCTTATCTCTTTGGAGCGGGGTGTTTTTCCATAAAGGCTCCATGCAAAGTTAAATCACCTCCACAAATTTCTCCAAGCAAATCAATGGGCGGTGAGTTTTGCGTGGCTGCAGTGTTTGGGACTTCCAGGTCGTGGTTTGCAAACAACGCTGGTCTGAAACGGGAAAAAGATCAGTCCAAACAAGTTGTAGTTGAATCTCTTTACATCATCAGCTGCTACGGGACCTTAGTGGAGCACATGATTGAGCCCCGGCCGATCAGTACTGCTCCCAAGATAAGTGACGACACACCACTGGAGATAATGACGTCACCCCGTGCCAGCTGGACACTTGTTAGAACGCCTCAGTGGAATGAACTGCAGCCGCCATTCAATGCGAATCACCCTCTGCTCCTCGCTGCAGAAGCAGTGCAGTATTACCAGCTCCTGCTGGCCGGCTCTCTTCCCCCTGGAAGTCCTGGCCCCATTACTCGACATGGGTCCTATGACAGCTTAGCCTCTGACCATAGTGGACAGGAAGATGAAGAATGGCTTTCCCAG
Peptide sequence:
MAFPGKLTSQDSYNNFTNNNPGNPRLSPLPSLMVVTPLAQIKQPMTLGTITKRTGPYLFGAGCFSIKAPCKVKSPPQISPSKSMGGEFCVAAVFGTSRSWFANNAGLKREKDQSKQVVVESLYIISCYGTLVEHMIEPRPISTAPKISDDTPLEIMTSPRASWTLVRTPQWNELQPPFNANHPLLLAAEAVQYYQLLLAGSLPPGSPGPITRHGSYDSLASDHSGQEDEEWLSQ
IRESfinder result
IRESfinder score
0.511561012
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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