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mmu_circBaz2b_602
Basic information of circular RNA
PanCircBase ID:
mmu_circBaz2b_602
mm39_Chr. Position ID:
chr2|59767029|59788836|-
Gene name:
Baz2b
Transcript:
ENSMUST00000112550.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
15,14,13,12,11,10
Exon/intron offsets:
0,6076,6252,11401,20944,21746
Genomic length:
21807
Exon/intron sizes in nt:
66,62,93,211,109,61
Flanking exon/introns:
chr2:59765624-59767029|chr2:59788836-59790164
Splice length:
602
Other database IDs:
circAtlas: mmu-Baz2b_0137
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTACATCCAAACGAAGAAGAGTGGCAGACGATCAGGAGCTGCGCATCCCTCTGGACTATGGCTGGCAGAGGGAGACAAGGGTGAGAAACTTTGGTGGGCGCCTTCCAGGAGAAGTTGCATATTATGCCCCGTGTGGGAAGAAGCTGAGGCAGTGCCCTGACATGGTAAAGGGAATGCAGTGGTGTCTTTTGAAAGAAGAGGATGTCATTCCTCGTATCAGGGCAATGGACGGCCGAAGAGGAAGACCACCCAATCCAGATAGACCCAGAGCAAGAGAGGAATCCAGGATGAAACGCCGGAAGGGTCGCCCTCCCAATGTTGGCAGTGCAGAATTCCTAGATAACACAGATGCAAAATTACTAAGGAAACTGCAGGCTCAAGAAATAGCCAGACAAGCAGCACAAATAAAACTTTTGAGAAAACTTCAGAAGCAGGAACAGGCACGGGTTGCCAAAGAAGCTAAAAAACAGCAAGCGATAATGGCTGCGGAAGAGAAGCGCAAACAGAAAGAACAGATGAAGATTATAAAGCAGCAGGAAAAAATTAAGAGAATACAGCAAATCAGAATGGAGAAAGAACTGAGAGCTCAGCAGATTCTCGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGAATGGAGAAAGAACTGAGAGC
59.37
CGCCCACCAAAGTTTCTCAC
59.69
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCAAATCAGAATGGAGAAAGA
58.68
CGCCCACCAAAGTTTCTCAC
59.69
149
PCR template sequence:
ACAGAAAGAACAGATGAAGATTATAAAGCAGCAGGAAAAAATTAAGAGAATACAGCAAATCAGAATGGAGAAAGAACTGAGAGCTCAGCAGATTCTCGAGGTACATCCAAACGAAGAAGAGTGGCAGACGATCAGGAGCTGCGCATCCCTCTGGACTATGGCTGGCAGAGGGAGACAAGGGTGAGAAACTTTGGTGGGCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(2), mmu-miR-204-5p(1), mmu-miR-136-5p(1), mmu-miR-370-3p(1), mmu-miR-541-5p(1), mmu-miR-324-3p(1), mmu-miR-207(1), mmu-miR-188-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGATTCTCGAGGTACATCCAAACG
siRNA sets
ATGTACCTCGAGAATCTGC, GATGTACCTCGAGAATCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBAZ2B_602_ORF_1
0.838
0.116407926
0.634513052
525
ORF sequence:
ATGGTAAAGGGAATGCAGTGGTGTCTTTTGAAAGAAGAGGATGTCATTCCTCGTATCAGGGCAATGGACGGCCGAAGAGGAAGACCACCCAATCCAGATAGACCCAGAGCAAGAGAGGAATCCAGGATGAAACGCCGGAAGGGTCGCCCTCCCAATGTTGGCAGTGCAGAATTCCTAGATAACACAGATGCAAAATTACTAAGGAAACTGCAGGCTCAAGAAATAGCCAGACAAGCAGCACAAATAAAACTTTTGAGAAAACTTCAGAAGCAGGAACAGGCACGGGTTGCCAAAGAAGCTAAAAAACAGCAAGCGATAATGGCTGCGGAAGAGAAGCGCAAACAGAAAGAACAGATGAAGATTATAAAGCAGCAGGAAAAAATTAAGAGAATACAGCAAATCAGAATGGAGAAAGAACTGAGAGCTCAGCAGATTCTCGAGGTACATCCAAACGAAGAAGAGTGGCAGACGATCAGGAGCTGCGCATCCCTCTGGACTATGGCTGGCAGAGGGAGACAAGGGTGA
Peptide sequence:
MVKGMQWCLLKEEDVIPRIRAMDGRRGRPPNPDRPRAREESRMKRRKGRPPNVGSAEFLDNTDAKLLRKLQAQEIARQAAQIKLLRKLQKQEQARVAKEAKKQQAIMAAEEKRKQKEQMKIIKQQEKIKRIQQIRMEKELRAQQILEVHPNEEEWQTIRSCASLWTMAGRGRQG
IRESfinder result
IRESfinder score
0.225307353
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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