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mmu_ciSst_621
Basic information of circular RNA
PanCircBase ID:
mmu_ciSst_621
mm39_Chr. Position ID:
chr16|23708735|23709356|-
Gene name:
Sst
Transcript:
ENSMUST00000004480.5
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
621
Exon/intron sizes in nt:
621
Flanking exon/introns:
chr16:23708691-23709356
Splice length:
621
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGGACTGTCCCCCTTACGAATCCCCCAGCCTTCCTGCTGCAGCCCCTGCGACAGGTGTTTAGCGGGCGCTTCTCAGAGTCGCTCAGCCCCTAAGCTCCCAGGGAAACTTTTGAAGTTAGGGTCCCCTCTTACTCTTTTCAGAATTGATCAGCGCAGGTGGTCACCTTGCAGGTAAGTTCCTCCCTGGCTTTCAAGAAAATTCAGAAAGCAGGTAGGAGAGACTGGGCTCTATCCCTGGTGCTGGCAAGAGGGTTGCTGACCCCGGTGCTGAAACGCAATGTTTGTTCACAAAACGATTCTGGGGCAAGAGGCTCTTCAGTTTATGGGAAGGTTTGCTTTTACCTTTCAAAAAATCTGGCAAGAACTCAGCTCCACTTCATATCTCATCACAGGAAAATGGAGCTGCGCAAACTATTGGCATTCTATGTAGTTATAAACGACTTCTTAATCATCTGTGATTTCTCTGTGTTTTAAGGCAGAGCACTTTCTGAAAGACTTGCGTTTGGGGAAGCTTTTTTTCTCCTGCATAATCTAATGAATACATACAGCAATCACCCATATGATTGTGAAAACTGGGTTTTGAGTGATTAAATCTTACTTTCAAACCACATTTTCCCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAAAACTGGGTTTTGAGTGA
58.92
GGCTGAGCGACTCTGAGAAG
60.18
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGAAAACTGGGTTTTGAGTGA
58.92
CTGAGCGACTCTGAGAAGCG
60.52
143
PCR template sequence:
TCTCCTGCATAATCTAATGAATACATACAGCAATCACCCATATGATTGTGAAAACTGGGTTTTGAGTGATTAAATCTTACTTTCAAACCACATTTTCCCCGTAAGGACTGTCCCCCTTACGAATCCCCCAGCCTTCCTGCTGCAGCCCCTGCGACAGGTGTTTAGCGGGCGCTTCTCAGAGTCGCTCAGCCCCTAAGCTC
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-20b-5p(1), mmu-miR-93-5p(1), mmu-miR-495-3p(1), mmu-miR-136-5p(1), mmu-miR-297a-5p(1), mmu-miR-539-5p(1), mmu-miR-452-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCACATTTTCCCCGTAAGGACTGTCC
siRNA sets
CCTTACGGGGAAAATGTGG
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
0.816493208
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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