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mmu_circBcas3_833
Basic information of circular RNA
PanCircBase ID:
mmu_circBcas3_833
mm39_Chr. Position ID:
chr11|85434753|85474820|+
Gene name:
Bcas3
Transcript:
ENSMUST00000108061.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
18,19,20,21,22,23,24
Exon/intron offsets:
0,10262,13395,15143,32854,37114,39969
Genomic length:
40067
Exon/intron sizes in nt:
45,125,166,101,101,197,98
Flanking exon/introns:
chr11:85422769-85434753|chr11:85474820-85692610
Splice length:
833
Other database IDs:
circAtlas: mmu-Bcas3_0001
circAtlas: hsa-BCAS3_0001, CIRCpedia: HSA_CIRCpedia_120272
Human Ortholog IDs:
Mature spliced Sequence:
GCCTTATCTCTTTGGAGCGGGGTGTTTTTCCATAAAGGCTCCATGCAAAGTTAAATCACCTCCACAAATTTCTCCAAGCAAATCAATGGGCGGTGAGTTTTGCGTGGCTGCAGTGTTTGGGACTTCCAGGTCGTGGTTTGCAAACAACGCTGGTCTGAAACGGGAAAAAGATCAGTCCAAACAAGTTGTAGTTGAATCTCTTTACATCATCAGCTGCTACGGGACCTTAGTGGAGCACATGATTGAGCCCCGGCCGATCAGTACTGCTCCCAAGATAAGTGACGACACACCACTGGAGATAATGACGTCACCCCGTGCCAGCTGGACACTTGTTAGAACGCCTCAGTGGAATGAACTGCAGCCGCCATTCAATGCGAATCACCCTCTGCTCCTCGCTGCAGAAGCAGTGCAGTATTACCAGCTCCTGCTGGCCGGCTCTCTTCCCCCTGGAAGTCCTGGCCCCATTACTCGACATGGGTCCTATGACAGCTTAGCCTCTGACCATAGTGGACAGGAAGATGAAGAATGGCTTTCCCAGGTTGAAATTGTGACACACACCGGACCCCACAGGCGCCTGTGGATGGGCCCACAATTCCATTTCAAAACCATCCAAACCTCAGGCCAGACCACGGTCATATCAACTAGTTCTTCTGTGTTACAATCGCACGGACCTAGCGACACACCACAGCCGCTCTTGGACTTTGATACGGATGATCTAGATCTTAACAGCCTCAGGATCCAGCCTGTCCGCTCTGACCCAGTCAGCATGCCAGGGTCATCCCGTGCTGTCTCTGATCGGAGGGGAGTTTCCACAGTGACCGATGCTGCCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGCTGTCTCTGATCGGAGG
59.9
CTCACCGCCCATTGATTTGC
60.18
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCTCTGATCGGAGGGGAGT
60.11
CTCACCGCCCATTGATTTGC
60.18
143
PCR template sequence:
AGGATCCAGCCTGTCCGCTCTGACCCAGTCAGCATGCCAGGGTCATCCCGTGCTGTCTCTGATCGGAGGGGAGTTTCCACAGTGACCGATGCTGCCTCAGGCCTTATCTCTTTGGAGCGGGGTGTTTTTCCATAAAGGCTCCATGCAAAGTTAAATCACCTCCACAAATTTCTCCAAGCAAATCAATGGGCGGTGAGTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-141-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-103-3p(1), mmu-let-7b-5p(1), mmu-miR-676-3p(1), mmu-miR-107-3p(1), mmu-miR-3087-3p(1), mmu-miR-540-3p(1), mmu-miR-490-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATGCTGCCTCAGGCCTTATCTCTTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBCAS3_833_ORF_1
0.7845
0.17939669
0.928287776
783
ORF sequence:
ATGGGCGGTGAGTTTTGCGTGGCTGCAGTGTTTGGGACTTCCAGGTCGTGGTTTGCAAACAACGCTGGTCTGAAACGGGAAAAAGATCAGTCCAAACAAGTTGTAGTTGAATCTCTTTACATCATCAGCTGCTACGGGACCTTAGTGGAGCACATGATTGAGCCCCGGCCGATCAGTACTGCTCCCAAGATAAGTGACGACACACCACTGGAGATAATGACGTCACCCCGTGCCAGCTGGACACTTGTTAGAACGCCTCAGTGGAATGAACTGCAGCCGCCATTCAATGCGAATCACCCTCTGCTCCTCGCTGCAGAAGCAGTGCAGTATTACCAGCTCCTGCTGGCCGGCTCTCTTCCCCCTGGAAGTCCTGGCCCCATTACTCGACATGGGTCCTATGACAGCTTAGCCTCTGACCATAGTGGACAGGAAGATGAAGAATGGCTTTCCCAGGTTGAAATTGTGACACACACCGGACCCCACAGGCGCCTGTGGATGGGCCCACAATTCCATTTCAAAACCATCCAAACCTCAGGCCAGACCACGGTCATATCAACTAGTTCTTCTGTGTTACAATCGCACGGACCTAGCGACACACCACAGCCGCTCTTGGACTTTGATACGGATGATCTAGATCTTAACAGCCTCAGGATCCAGCCTGTCCGCTCTGACCCAGTCAGCATGCCAGGGTCATCCCGTGCTGTCTCTGATCGGAGGGGAGTTTCCACAGTGACCGATGCTGCCTCAGGCCTTATCTCTTTGGAGCGGGGTGTTTTTCCATAA
Peptide sequence:
MGGEFCVAAVFGTSRSWFANNAGLKREKDQSKQVVVESLYIISCYGTLVEHMIEPRPISTAPKISDDTPLEIMTSPRASWTLVRTPQWNELQPPFNANHPLLLAAEAVQYYQLLLAGSLPPGSPGPITRHGSYDSLASDHSGQEDEEWLSQVEIVTHTGPHRRLWMGPQFHFKTIQTSGQTTVISTSSSVLQSHGPSDTPQPLLDFDTDDLDLNSLRIQPVRSDPVSMPGSSRAVSDRRGVSTVTDAASGLISLERGVFP
IRESfinder result
IRESfinder score
0.514380753
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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