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mmu_ciCdkl2_717
Basic information of circular RNA
PanCircBase ID:
mmu_ciCdkl2_717
mm39_Chr. Position ID:
chr5|92156106|92156823|-
Gene name:
Cdkl2
Transcript:
ENSMUST00000086978.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
13
Exon/intron offsets:
0
Genomic length:
717
Exon/intron sizes in nt:
717
Flanking exon/introns:
chr5:92155993-92156823
Splice length:
717
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGTCTGATTCCTCACACTTAAAGCTGTGTAAACTCTTCACGAGACACTTTAGTGAAAACATTCTCTAGTGATTCCATGAGAACTGCTGCTGGCAAAGAAGTGGTGCATTGCTTAGAAGGTCAGGAGTGATGTCCTCCAGGGGAACATGTCTGTCTTCAGGATTAGTCTTTCCCCTGTAGGCTTGCAAAGCAAGATCCACTCAGTGATTGCCCGCCAGTTTCTGTCCCAGTACCAAAATCTACTCTATATAAACAGTACTTGCTTCATAAGAAGTGCCCCAATCCCACTCAGACTTATTTTAATAATAATCTGCTGGAACCTTAAGCTTAACATTTCTTATTCAGTATCTCATTAATTTTATGTAGAATATGATAGTGATAAAATTCCATATGCTATAACTATGTCATTGCAATTAATTTATTAACTTCAACAAAATATTTTGAACACCTGTGGCATCAAAGCTAAATTGACTTTCAAGTGAACAAAGCTTAACTGCAAGCCTTCATTTACACAAGCCTTACGAAGGCCCCAGGAAAGGTCTCCATGATGCAATCCCTGAACTATGAACCATCAAGTCATGTAAGCTCTACAAGTTGTGTGTTCTATAAATTTAGATCAGTCAATGTTTGCATAAAATGAGACAGTATGCTACACATCATTGTTTAGATTGGTAGTTATCTTAAAGATTGTCTCTAAAATATTAAAGTTTCTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGACAGTATGCTACACATCA
56.66
CCAGCAGCAGTTCTCATGGA
60.04
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGACAGTATGCTACACATCAT
57.14
CCAGCAGCAGTTCTCATGGA
60.04
173
PCR template sequence:
ATCAGTCAATGTTTGCATAAAATGAGACAGTATGCTACACATCATTGTTTAGATTGGTAGTTATCTTAAAGATTGTCTCTAAAATATTAAAGTTTCTTAGGTAGGTCTGATTCCTCACACTTAAAGCTGTGTAAACTCTTCACGAGACACTTTAGTGAAAACATTCTCTAGTGATTCCATGAGAACTGCTGCTGGCAAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-511-3p(1), mmu-miR-541-5p(1), mmu-miR-666-5p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TAAAGTTTCTTAGGTAGGTCTGATTC
siRNA sets
AATCAGACCTACCTAAGAA, GAATCAGACCTACCTAAGA
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
0.858542399
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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