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mmu_circBivm_420
Basic information of circular RNA
PanCircBase ID:
mmu_circBivm_420
mm39_Chr. Position ID:
chr1|44168419|44177819|+
Gene name:
Bivm
Transcript:
ENSMUST00000035991.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,7,8,9
Exon/intron offsets:
0,323,7724,9313
Genomic length:
9400
Exon/intron sizes in nt:
105,95,133,87
Flanking exon/introns:
chr1:44167983-44168419|chr1:44177819-44180937
Splice length:
420
Other database IDs:
circBase: hsa_circ_0099810, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_10036
Human Ortholog IDs:
Mature spliced Sequence:
TCTCCCACCTATTACCCAAGAAGAGGCATTACATATTTTGGGCTTCCAACCCCCATTTGAAGATATTAGGTTTGGCCCTTTCACTGGAAATACAACACTCATGAGATGGTTTAGACAAATTAATGACCACTTTCATGTGAAAGGATGCTCTTATGTTCTATATAAGCCCCATGGGAAGAACAAAACAGCTGGAGAAACTGCTCCAGGGGCCTTATCAAAGTTGACCCGAGGATTGAAAGATGAGTCACTGGCTTATATCTATCATTGCCAAAATCACTATTTCTGTCCAATTGGCTTTGAAGCAACCCCTGTGAAAGCTAATAAAGCATTCAGCAGGGGGCCCCTCTCTTCACAAGAAGTAGAATACTGGATTTTAATTGGAGAGTCAAGTAGAAAACATCCTGCCATTCACTGTAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCCCTCTCTTCACAAGAA
59.31
TCCAGTGAAAGGGCCAAACC
60.47
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCCCCTCTCTTCACAAGAA
59.31
CCAGTGAAAGGGCCAAACCT
60.47
169
PCR template sequence:
ATAAAGCATTCAGCAGGGGGCCCCTCTCTTCACAAGAAGTAGAATACTGGATTTTAATTGGAGAGTCAAGTAGAAAACATCCTGCCATTCACTGTAAAAGTCTCCCACCTATTACCCAAGAAGAGGCATTACATATTTTGGGCTTCCAACCCCCATTTGAAGATATTAGGTTTGGCCCTTTCACTGGAAATACAACACTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-296-5p(1), mmu-miR-199a-5p(1), mmu-miR-182-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TTCACTGTAAAAGTCTCCCACCTATT
siRNA sets
ATAGGTGGGAGACTTTTAC, AATAGGTGGGAGACTTTTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBIVM_420_ORF_1
0.7266
-0.106841011
0.726568325
738
ORF sequence:
ATGAGATGGTTTAGACAAATTAATGACCACTTTCATGTGAAAGGATGCTCTTATGTTCTATATAAGCCCCATGGGAAGAACAAAACAGCTGGAGAAACTGCTCCAGGGGCCTTATCAAAGTTGACCCGAGGATTGAAAGATGAGTCACTGGCTTATATCTATCATTGCCAAAATCACTATTTCTGTCCAATTGGCTTTGAAGCAACCCCTGTGAAAGCTAATAAAGCATTCAGCAGGGGGCCCCTCTCTTCACAAGAAGTAGAATACTGGATTTTAATTGGAGAGTCAAGTAGAAAACATCCTGCCATTCACTGTAAAAGTCTCCCACCTATTACCCAAGAAGAGGCATTACATATTTTGGGCTTCCAACCCCCATTTGAAGATATTAGGTTTGGCCCTTTCACTGGAAATACAACACTCATGAGATGGTTTAGACAAATTAATGACCACTTTCATGTGAAAGGATGCTCTTATGTTCTATATAAGCCCCATGGGAAGAACAAAACAGCTGGAGAAACTGCTCCAGGGGCCTTATCAAAGTTGACCCGAGGATTGAAAGATGAGTCACTGGCTTATATCTATCATTGCCAAAATCACTATTTCTGTCCAATTGGCTTTGAAGCAACCCCTGTGAAAGCTAATAAAGCATTCAGCAGGGGGCCCCTCTCTTCACAAGAAGTAGAATACTGGATTTTAATTGGAGAGTCAAGTAGAAAACATCCTGCCATTCACTGTAAA
Peptide sequence:
MRWFRQINDHFHVKGCSYVLYKPHGKNKTAGETAPGALSKLTRGLKDESLAYIYHCQNHYFCPIGFEATPVKANKAFSRGPLSSQEVEYWILIGESSRKHPAIHCKSLPPITQEEALHILGFQPPFEDIRFGPFTGNTTLMRWFRQINDHFHVKGCSYVLYKPHGKNKTAGETAPGALSKLTRGLKDESLAYIYHCQNHYFCPIGFEATPVKANKAFSRGPLSSQEVEYWILIGESSRKHPAIHCK
IRESfinder result
IRESfinder score
0.816629439
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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