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mmu_circCiao2a_261
Basic information of circular RNA
PanCircBase ID:
mmu_circCiao2a_261
mm39_Chr. Position ID:
chr9|66039808|66043629|+
Gene name:
Ciao2a
Transcript:
ENSMUST00000034945.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,905,3775
Genomic length:
3821
Exon/intron sizes in nt:
165,50,46
Flanking exon/introns:
chr9:66034252-66039808|chr9:66043629-66045618
Splice length:
261
Other database IDs:
CIRCpedia: MMU_CIRCpedia_220271, circAtlas: mmu-Fam96a_0001
circBase: hsa_circ_0104198, circAtlas: hsa-FAM96A_0001, CIRCpedia: HSA_CIRCpedia_130806
Human Ortholog IDs:
Mature spliced Sequence:
ATTTGATTCGAACTATCCGGGACCCAGAAAAGCCCAATACTTTAGAAGAACTGGAAGTGGTCACAGAGAGTTGTGTGGAAGTTCAAGAAATAAATGAAGATGACTATTTGGTTATTATCAAGTTCACACCAACAGTACCTCATTGCTCTTTGGCAACTCTTATTGGGCTGTGCCTAAGAGTAAAGCTTCAGCGGTGTCTGCCGTTCAAACACAAGTTGGAAATCTACATTTCTGAAGGAACTCACTCGACAGAAGAAGACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGTCTGCCGTTCAAACAC
59.97
ACTCTCTGTGACCACTTCCAG
59.03
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGTCTGCCGTTCAAACAC
59.97
ACTCTCTGTGACCACTTCCA
57.91
140
PCR template sequence:
ATTGGGCTGTGCCTAAGAGTAAAGCTTCAGCGGTGTCTGCCGTTCAAACACAAGTTGGAAATCTACATTTCTGAAGGAACTCACTCGACAGAAGAAGACAATTTGATTCGAACTATCCGGGACCCAGAAAAGCCCAATACTTTAGAAGAACTGGAAGTGGTCACAGAGAGTTGTGTGGAAGTTCAAGAAATAAATGAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGAAGAAGACAATTTGATTCGAAC
siRNA sets
ATCAAATTGTCTTCTTCTG, TTCGAATCAAATTGTCTTC, AATCAAATTGTCTTCTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.734735075
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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