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mmu_circIno80b_312
Basic information of circular RNA
PanCircBase ID:
mmu_circIno80b_312
mm39_Chr. Position ID:
chr6|83101287|83101758|-
Gene name:
Ino80b
Transcript:
ENSMUST00000113935.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,278
Genomic length:
471
Exon/intron sizes in nt:
119,193
Flanking exon/introns:
chr6:83101144-83101287|chr6:83101758-83101991
Splice length:
312
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGGAAACGCTGGAGCTGAGCCTGGCAGGTGCCCACGGCCACGGAGTACACAAGAAAAAACACAAGAAACATAAAAAGAAACACAAGAAAAAGCATCATCAGGAAGAGGAGGCCGGACCGACGCTGCAGACTCCTGCCAAGCCCCAACTTAAACTTAAAATCAAGCTGGGTGGACAGGTCCTGGGCACCAAGAGTGTCCCCACTTTCACTGTGATTCCTGAGGGGCCTCGCTCACCGTCTCCCCTGATGGTGGTGGATAATGAAGAGGAACCTATGGAAGGCGTACCTCTGGAGCAGTACCGCGCCTGGCTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCCTGAGGGGCCTCGC
61.48
TTCTTGTGTACTCCGTGGCC
59.97
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCACCGTCTCCCCTGAT
61.06
TTTCTTGTGTACTCCGTGGCC
60.54
140
PCR template sequence:
ATTCCTGAGGGGCCTCGCTCACCGTCTCCCCTGATGGTGGTGGATAATGAAGAGGAACCTATGGAAGGCGTACCTCTGGAGCAGTACCGCGCCTGGCTGGGGGAAACGCTGGAGCTGAGCCTGGCAGGTGCCCACGGCCACGGAGTACACAAGAAAAAACACAAGAAACATAAAAAGAAACACAAGAAAAAGCATCATCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-669d-5p(2), mmu-miR-137-3p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-128-3p(1), mmu-miR-24-3p(1), mmu-miR-433-5p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
CGCGCCTGGCTGGGGGAAACGCTGGA
siRNA sets
TCCAGCGTTTCCCCCAGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCINO80B_312_ORF_1
1.2355
0.406505009
0.806852533
378
ORF sequence:
ATGGTGGTGGATAATGAAGAGGAACCTATGGAAGGCGTACCTCTGGAGCAGTACCGCGCCTGGCTGGGGGAAACGCTGGAGCTGAGCCTGGCAGGTGCCCACGGCCACGGAGTACACAAGAAAAAACACAAGAAACATAAAAAGAAACACAAGAAAAAGCATCATCAGGAAGAGGAGGCCGGACCGACGCTGCAGACTCCTGCCAAGCCCCAACTTAAACTTAAAATCAAGCTGGGTGGACAGGTCCTGGGCACCAAGAGTGTCCCCACTTTCACTGTGATTCCTGAGGGGCCTCGCTCACCGTCTCCCCTGATGGTGGTGGATAATGAAGAGGAACCTATGGAAGGCGTACCTCTGGAGCAGTACCGCGCCTGGCTG
Peptide sequence:
MVVDNEEEPMEGVPLEQYRAWLGETLELSLAGAHGHGVHKKKHKKHKKKHKKKHHQEEEAGPTLQTPAKPQLKLKIKLGGQVLGTKSVPTFTVIPEGPRSPSPLMVVDNEEEPMEGVPLEQYRAWL
IRESfinder result
IRESfinder score
0.306399286
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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