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mmu_circBrsk2_1135
Basic information of circular RNA
PanCircBase ID:
mmu_circBrsk2_1135
mm39_Chr. Position ID:
chr7|141535273|141542173|+
Gene name:
Brsk2
Transcript:
ENSMUST00000078200.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,1444,2857,3312,3897,4173,4349,5885,6214,6577,6749
Genomic length:
6900
Exon/intron sizes in nt:
95,86,14,11,17,34,69,10,00,00,00,00,000
Flanking exon/introns:
chr7:141503916-141535273|chr7:141542173-141545976
Splice length:
1135
Other database IDs:
CIRCpedia: MMU_CIRCpedia_9149, circAtlas: mmu-Brsk2_0008
Human Ortholog IDs:
Mature spliced Sequence:
GCTTGGTGAAGCTGGGAATCCACTGTGTCACTTGCCAGAAGGTCGCCATCAAAATCGTGAACCGTGAGAAGCTCAGTGAGTCGGTGCTGATGAAGGTGGAGCGAGAGATTGCCATCTTGAAGCTCATCGAGCATCCACATGTACTGAAGCTGCATGACGTCTATGAAAACAAAAAATATTTATACCTGGTGCTAGAACATGTGTCTGGGGGAGAGCTGTTCGACTACCTGGTGAAGAAGGGCCGGCTGACCCCCAAGGAGGCCCGCAAGTTCTTCCGGCAGATCATCTCTGCACTGGACTTCTGTCACAGCCACTCCATATGCCATAGAGACTTGAAGCCAGAGAACCTGCTGCTAGATGAGAGGAACAACATCCGTATTGCAGACTTTGGCATGGCATCCCTGCAGGTGGGAGACAGCCTGCTGGAGACCAGCTGCGGATCTCCACACTATGCCTGTCCGGAAGTGATTCGGGGCGAGAAGTATGATGGCCGCAAGGCAGATGTGTGGAGCTGTGGTGTGATCCTGTTCGCCTTGCTGGTGGGGGCTCTGCCTTTTGATGATGACAACCTGCGGCAGTTGCTGGAGAAGGTCAAGCGTGGTGTGTTCCACATGCCACACTTTATCCCACCAGACTGCCAGAGTCTCCTGCGTGGCATGATTGAGGTGGATGCAGCTCGGCGCCTCACGCTAGAGCACATTCAGAAACACATATGGTATATAGGTGGCAAGAATGAGCCAGAGCCCGAACAGCCCATCCCACGCAAGGTGCAGATCCGCTCACTACCCAGCTTGGAAGACATTGACCCTGATGTGTTGGACAGCATGCACTCACTGGGCTGCTTCCGAGACCGCAACAAGCTGCTGCAGGATCTGCTATCTGAGGAGGAGAATCAGGAAAAGATGATTTATTTCCTCCTCCTGGATCGGAAAGAACGGTATCCAAGCCATGAGGATGAGGACCTGCCCCCCAGGAATGAGATAGACCCTCCCCGGAAGCGTGTGGATTCCCCGATGCTGAACCGGCATGGCAAGCGGCGACCTGAGCGCAAGTCCATGGAAGTGCTCAGTGTGACAGATGGTGGCTCCCCAGTGCCTGCACGGAGAGCCATTGAGATGGCCCAGCATGGCCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGTGTGACAGATGGTGGC
59.96
CACCTTCATCAGCACCGACT
60.04
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGTGTGACAGATGGTGGCT
59.96
CACCTTCATCAGCACCGACT
60.04
167
PCR template sequence:
GGCGACCTGAGCGCAAGTCCATGGAAGTGCTCAGTGTGACAGATGGTGGCTCCCCAGTGCCTGCACGGAGAGCCATTGAGATGGCCCAGCATGGCCAGAGGCTTGGTGAAGCTGGGAATCCACTGTGTCACTTGCCAGAAGGTCGCCATCAAAATCGTGAACCGTGAGAAGCTCAGTGAGTCGGTGCTGATGAAGGTGGA
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-205-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-152-3p(1), mmu-miR-320-3p(1), mmu-miR-149-5p(1), mmu-miR-431-5p(1), mmu-miR-1198-5p(1), mmu-miR-207(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCATGGCCAGAGGCTTGGTGAAGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRSK2_1135_ORF_1
1.2731
0.48727867
0.999528102
1191
ORF sequence:
ATGGTGGCTCCCCAGTGCCTGCACGGAGAGCCATTGAGATGGCCCAGCATGGCCAGAGGCTTGGTGAAGCTGGGAATCCACTGTGTCACTTGCCAGAAGGTCGCCATCAAAATCGTGAACCGTGAGAAGCTCAGTGAGTCGGTGCTGATGAAGGTGGAGCGAGAGATTGCCATCTTGAAGCTCATCGAGCATCCACATGTACTGAAGCTGCATGACGTCTATGAAAACAAAAAATATTTATACCTGGTGCTAGAACATGTGTCTGGGGGAGAGCTGTTCGACTACCTGGTGAAGAAGGGCCGGCTGACCCCCAAGGAGGCCCGCAAGTTCTTCCGGCAGATCATCTCTGCACTGGACTTCTGTCACAGCCACTCCATATGCCATAGAGACTTGAAGCCAGAGAACCTGCTGCTAGATGAGAGGAACAACATCCGTATTGCAGACTTTGGCATGGCATCCCTGCAGGTGGGAGACAGCCTGCTGGAGACCAGCTGCGGATCTCCACACTATGCCTGTCCGGAAGTGATTCGGGGCGAGAAGTATGATGGCCGCAAGGCAGATGTGTGGAGCTGTGGTGTGATCCTGTTCGCCTTGCTGGTGGGGGCTCTGCCTTTTGATGATGACAACCTGCGGCAGTTGCTGGAGAAGGTCAAGCGTGGTGTGTTCCACATGCCACACTTTATCCCACCAGACTGCCAGAGTCTCCTGCGTGGCATGATTGAGGTGGATGCAGCTCGGCGCCTCACGCTAGAGCACATTCAGAAACACATATGGTATATAGGTGGCAAGAATGAGCCAGAGCCCGAACAGCCCATCCCACGCAAGGTGCAGATCCGCTCACTACCCAGCTTGGAAGACATTGACCCTGATGTGTTGGACAGCATGCACTCACTGGGCTGCTTCCGAGACCGCAACAAGCTGCTGCAGGATCTGCTATCTGAGGAGGAGAATCAGGAAAAGATGATTTATTTCCTCCTCCTGGATCGGAAAGAACGGTATCCAAGCCATGAGGATGAGGACCTGCCCCCCAGGAATGAGATAGACCCTCCCCGGAAGCGTGTGGATTCCCCGATGCTGAACCGGCATGGCAAGCGGCGACCTGAGCGCAAGTCCATGGAAGTGCTCAGTGTGACAGATGGTGGCTCCCCAGTGCCTGCACGGAGAGCCATTGAGATGGCCCAGCATGGCCAG
Peptide sequence:
MVAPQCLHGEPLRWPSMARGLVKLGIHCVTCQKVAIKIVNREKLSESVLMKVEREIAILKLIEHPHVLKLHDVYENKKYLYLVLEHVSGGELFDYLVKKGRLTPKEARKFFRQIISALDFCHSHSICHRDLKPENLLLDERNNIRIADFGMASLQVGDSLLETSCGSPHYACPEVIRGEKYDGRKADVWSCGVILFALLVGALPFDDDNLRQLLEKVKRGVFHMPHFIPPDCQSLLRGMIEVDAARRLTLEHIQKHIWYIGGKNEPEPEQPIPRKVQIRSLPSLEDIDPDVLDSMHSLGCFRDRNKLLQDLLSEEENQEKMIYFLLLDRKERYPSHEDEDLPPRNEIDPPRKRVDSPMLNRHGKRRPERKSMEVLSVTDGGSPVPARRAIEMAQHGQ
IRESfinder result
IRESfinder score
0.21817605
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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