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mmu_ci9930021J03Rik_976
Basic information of circular RNA
PanCircBase ID:
mmu_ci9930021J03Rik_976
mm39_Chr. Position ID:
chr19|29697009|29697985|-
Gene name:
9930021J03Rik
Transcript:
ENSMUST00000175726.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
976
Exon/intron sizes in nt:
976
Flanking exon/introns:
chr19:29697006-29697985
Splice length:
976
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGCATCCGAGCTTTCTAAATAGAAGTACAGAGAGAATCCGCTGTTTGTTTGTTGTGAAGGCAAAAGGTGATCTAGTCAGTGAATGTGATTGAGGAAGTCTGATATTTTAAAGAAATAATATCTATATCCTTGGGAGTTATTGTTAAATTTTAAGAGTTCCTGGAGCCAGTGCCTAAACCTAAGTTACACGTATGTCATTGCTTGTTACAGATCCTGCACTGCTAATCTGTTACCTCTTTGGAATTTATTGATTATCTTTTTATTGTTACTACTCATAAAATTCTGTTGGCAAAGTATACTGTAAATGAATTTGACAAGTCATTAAGATTGTGAGGATTTTTTTTTTTAAATGAGGTGTGGCCAAAGTTCTTGGCCAACTGAGACCAAAGTAAACATATCATTCTAGTAAGTATGGGAAACTGGACCCATTGATTCCACTGCATGTGGCTCATTTTAACTCACCAGCGACATTCTTTAGTTATGTAAGAAGTTGATGTGAAAACTTACGATGATGTGTTAACCTAGTTCATGTCTTTTGTGAATTGAAAAAGTGGACTTCTTCTGACCAGATATGACCATAAATTATTTAAGGATAAAAACAGGAAAGGTTGAACATTTGTTCTCATTTAGAGTTCTTAAAGACAATAAAGAATAGCAACCATTCATTCTTCTATGGCATACAGTTTTCCCTATCTAGAGAAAGAAAACTAGCCGGATTAAACTTCTTTTTAGCCATGAGTTTTTCCTTAACACACATAGACAGCAGGATTAGACCAAAGCTAATAATAAGTTGCTCTTAAACATATTTGGGATACAGAAGTCAGCTTGTCAACCTTCTTCAGTATTGCTGAAGTTTTGAAATGTTTGCACAATAGACGACTTAAATTACCTTCTCAAAGGGTGACTTTATTTTTTTAATTGGTGTTACTCGATCACTGTTTTCTATAAACAACATGCTTGTTTTTATAATTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGGTGTTACTCGATCACTGT
57.46
CACTGACTAGATCACCTTTTGCC
59.31
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATTGGTGTTACTCGATCACTGT
58.11
ACTGACTAGATCACCTTTTGCCT
59.42
140
PCR template sequence:
AGACGACTTAAATTACCTTCTCAAAGGGTGACTTTATTTTTTTAATTGGTGTTACTCGATCACTGTTTTCTATAAACAACATGCTTGTTTTTATAATTTTGTAGGCATCCGAGCTTTCTAAATAGAAGTACAGAGAGAATCCGCTGTTTGTTTGTTGTGAAGGCAAAAGGTGATCTAGTCAGTGAATGTGATTGAGGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(2), mmu-miR-23b-3p(1), mmu-let-7b-5p(1), mmu-miR-19b-3p(1), mmu-miR-146a-5p(1), mmu-miR-19a-3p(1), mmu-miR-152-3p(1), mmu-miR-138-5p(1), mmu-miR-181b-5p(1), mmu-miR-495-3p(1), mmu-let-7d-5p(1), mmu-miR-149-5p(1), mmu-miR-382-3p(1), mmu-miR-190b-5p(1), mmu-miR-3065-5p(1), mmu-miR-350-3p(1), mmu-miR-540-3p(1), mmu-miR-146b-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTTATAATTTTGTAGGCATCCGAG
siRNA sets
NA
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
0.908017254
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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