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mmu_circBrsk1_969
Basic information of circular RNA
PanCircBase ID:
mmu_circBrsk1_969
mm39_Chr. Position ID:
chr7|4697672|4709493|+
Gene name:
Brsk1
Transcript:
ENSMUST00000120836.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,4026,4245,4364,9454,10010,10394,11346,11661
Genomic length:
11821
Exon/intron sizes in nt:
14,11,17,34,69,14,73,20,00,00,000
Flanking exon/introns:
chr7:4695964-4697672|chr7:4709493-4709660
Splice length:
969
Other database IDs:
circAtlas: hsa-BRSK1_0003
Human Ortholog IDs:
Mature spliced Sequence:
ATACTTGGTTCTTGAGCACGTTTCTGGTGGTGAGCTGTTCGACTACCTGGTAAAAAAAGGGAGACTGACACCCAAGGAGGCCCGGAAGTTCTTCCGCCAGATCGTGTCAGCACTGGACTTCTGCCATAGCTACTCCATCTGTCACAGAGACTTGAAGCCAGAGAACCTGCTGTTGGATGAGAAAAACAACATCCGCATCGCAGACTTTGGTATGGCGTCCCTGCAAGTGGGGGACAGCCTCCTGGAGACCAGCTGCGGGTCCCCCCATTACGCATGTCCAGAGGTGATCAAGGGGGAAAAGTATGATGGCCGCCGGGCAGACATGTGGAGCTGTGGAGTCATCCTATTTGCCCTGCTTGTGGGGGCACTGCCCTTCGATGACGACAACCTGCGCCAGCTACTGGAGAAGGTGAAACGTGGGGTCTTCCACATGCCTCACTTCATCCCTCCAGACTGCCAGAGCCTCCTGAGAGGGATGATTGAAGTGGAGCCCGAGAAAAGGCTCAGTCTGGAGCAAATTCAGAAACATCCTTGGTATCTGGGCGGGAAACACGAACCAGACCCTTGCCTGGAGCCAGCCCCAGGCCGCAGAGTAGCCATGCGTAGCCTGCCTTCCAATGGCGAGCTGGACCCTGACGTTCTGGAAAGCATGGCGTCTCTGGGCTGCTTCAGAGACCGCGAGCGGCTGCACAGAGAACTGCGAAGCGAGGAGGAAAACCAAGAAAAGATGATCTATTATTTGCTTTTGGATCGGAAAGAGCGGTATCCTAGCTGTGAAGACCAGGACCTGCCTCCTCGGAATGATGTTGACCCACCTCGTAAGCGTGTGGATTCCCCCATGCTGAGCAGACACGGGAAACGGAGGCCAGAGCGGAAGTCCATGGAAGTCCTCAGTATCACAGATGCTGGGAGTGGTGGCTCCCCAGTGCCTACCAGACGGGCCTTGGAGATGGCCCAGCACAGTCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCGGAAGTCCATGGAAGTC
59.75
CGAACAGCTCACCACCAGAA
60.25
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCGGAAGTCCATGGAAGTC
59.75
TAGTCGAACAGCTCACCACC
59.4
145
PCR template sequence:
AGCGGAAGTCCATGGAAGTCCTCAGTATCACAGATGCTGGGAGTGGTGGCTCCCCAGTGCCTACCAGACGGGCCTTGGAGATGGCCCAGCACAGTCAGAGATACTTGGTTCTTGAGCACGTTTCTGGTGGTGAGCTGTTCGACTACCTGGTAAAAAAAGGGAGACTGACACCCAAGGAGGCCCGGAAGTTCTTCCGCCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-7b-5p(1), mmu-miR-34a-5p(1), mmu-miR-673-5p(1), mmu-miR-188-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCACAGTCAGAGATACTTGGTTCTT
siRNA sets
AAGAACCAAGTATCTCTGA, AGAACCAAGTATCTCTGAC, GAACCAAGTATCTCTGACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBRSK1_969_ORF_1
1.066
0.399547603
0.999979099
1725
ORF sequence:
ATGGCGTCCCTGCAAGTGGGGGACAGCCTCCTGGAGACCAGCTGCGGGTCCCCCCATTACGCATGTCCAGAGGTGATCAAGGGGGAAAAGTATGATGGCCGCCGGGCAGACATGTGGAGCTGTGGAGTCATCCTATTTGCCCTGCTTGTGGGGGCACTGCCCTTCGATGACGACAACCTGCGCCAGCTACTGGAGAAGGTGAAACGTGGGGTCTTCCACATGCCTCACTTCATCCCTCCAGACTGCCAGAGCCTCCTGAGAGGGATGATTGAAGTGGAGCCCGAGAAAAGGCTCAGTCTGGAGCAAATTCAGAAACATCCTTGGTATCTGGGCGGGAAACACGAACCAGACCCTTGCCTGGAGCCAGCCCCAGGCCGCAGAGTAGCCATGCGTAGCCTGCCTTCCAATGGCGAGCTGGACCCTGACGTTCTGGAAAGCATGGCGTCTCTGGGCTGCTTCAGAGACCGCGAGCGGCTGCACAGAGAACTGCGAAGCGAGGAGGAAAACCAAGAAAAGATGATCTATTATTTGCTTTTGGATCGGAAAGAGCGGTATCCTAGCTGTGAAGACCAGGACCTGCCTCCTCGGAATGATGTTGACCCACCTCGTAAGCGTGTGGATTCCCCCATGCTGAGCAGACACGGGAAACGGAGGCCAGAGCGGAAGTCCATGGAAGTCCTCAGTATCACAGATGCTGGGAGTGGTGGCTCCCCAGTGCCTACCAGACGGGCCTTGGAGATGGCCCAGCACAGTCAGAGATACTTGGTTCTTGAGCACGTTTCTGGTGGTGAGCTGTTCGACTACCTGGTAAAAAAAGGGAGACTGACACCCAAGGAGGCCCGGAAGTTCTTCCGCCAGATCGTGTCAGCACTGGACTTCTGCCATAGCTACTCCATCTGTCACAGAGACTTGAAGCCAGAGAACCTGCTGTTGGATGAGAAAAACAACATCCGCATCGCAGACTTTGGTATGGCGTCCCTGCAAGTGGGGGACAGCCTCCTGGAGACCAGCTGCGGGTCCCCCCATTACGCATGTCCAGAGGTGATCAAGGGGGAAAAGTATGATGGCCGCCGGGCAGACATGTGGAGCTGTGGAGTCATCCTATTTGCCCTGCTTGTGGGGGCACTGCCCTTCGATGACGACAACCTGCGCCAGCTACTGGAGAAGGTGAAACGTGGGGTCTTCCACATGCCTCACTTCATCCCTCCAGACTGCCAGAGCCTCCTGAGAGGGATGATTGAAGTGGAGCCCGAGAAAAGGCTCAGTCTGGAGCAAATTCAGAAACATCCTTGGTATCTGGGCGGGAAACACGAACCAGACCCTTGCCTGGAGCCAGCCCCAGGCCGCAGAGTAGCCATGCGTAGCCTGCCTTCCAATGGCGAGCTGGACCCTGACGTTCTGGAAAGCATGGCGTCTCTGGGCTGCTTCAGAGACCGCGAGCGGCTGCACAGAGAACTGCGAAGCGAGGAGGAAAACCAAGAAAAGATGATCTATTATTTGCTTTTGGATCGGAAAGAGCGGTATCCTAGCTGTGAAGACCAGGACCTGCCTCCTCGGAATGATGTTGACCCACCTCGTAAGCGTGTGGATTCCCCCATGCTGAGCAGACACGGGAAACGGAGGCCAGAGCGGAAGTCCATGGAAGTCCTCAGTATCACAGATGCTGGGAGTGGTGGCTCCCCAGTGCCTACCAGACGGGCCTTGGAGATGGCCCAGCACAGTCAG
Peptide sequence:
MASLQVGDSLLETSCGSPHYACPEVIKGEKYDGRRADMWSCGVILFALLVGALPFDDDNLRQLLEKVKRGVFHMPHFIPPDCQSLLRGMIEVEPEKRLSLEQIQKHPWYLGGKHEPDPCLEPAPGRRVAMRSLPSNGELDPDVLESMASLGCFRDRERLHRELRSEEENQEKMIYYLLLDRKERYPSCEDQDLPPRNDVDPPRKRVDSPMLSRHGKRRPERKSMEVLSITDAGSGGSPVPTRRALEMAQHSQRYLVLEHVSGGELFDYLVKKGRLTPKEARKFFRQIVSALDFCHSYSICHRDLKPENLLLDEKNNIRIADFGMASLQVGDSLLETSCGSPHYACPEVIKGEKYDGRRADMWSCGVILFALLVGALPFDDDNLRQLLEKVKRGVFHMPHFIPPDCQSLLRGMIEVEPEKRLSLEQIQKHPWYLGGKHEPDPCLEPAPGRRVAMRSLPSNGELDPDVLESMASLGCFRDRERLHRELRSEEENQEKMIYYLLLDRKERYPSCEDQDLPPRNDVDPPRKRVDSPMLSRHGKRRPERKSMEVLSITDAGSGGSPVPTRRALEMAQHSQ
IRESfinder result
IRESfinder score
0.35546941
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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