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mmu_ciDennd4c_1012
Basic information of circular RNA
PanCircBase ID:
mmu_ciDennd4c_1012
mm39_Chr. Position ID:
chr4|86707128|86708140|+
Gene name:
Dennd4c
Transcript:
ENSMUST00000045512.15
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
1012
Exon/intron sizes in nt:
1012
Flanking exon/introns:
chr4:86707128-86708140
Splice length:
1012
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAATGAAAAGGGAGTCTATTCATGTCAGTTTGTGCTAAGTTCTTTGAGTGTGAGATGAAGCAGTATGTGTGTTTGAAGTTCTGACTATTCTTTATTGAACATTTTTTTCCTAGTCGGTTTTTAGACCTCAGGTGAATAGAACTAGAGTAAATACTACCTATGAGTCATGGTATTGTTTTTATTGGTTCATGTGTGCCCTTTCCATAGCTAAATTTAATAATTAAACCCATAACATAAAATTACGTGATAGTTATGTCCTTAGTTTCTGAGTAACTGATAGTATTTAGTATTTCAATATTTAAATGCTGAGTATTTAAAGTTTATTTGGAAGGAGGGAAATTAATACAGCTTTTAACAGTACTTTCAGACTGTACTAAAGAACCTGCTTCTTTCTTAGGCCTAGGTAGGTGCACAACTTGTGACATTTATTTACTACCTAGAATCAGTACAGACAAGATTTCAAAGACTTATTGCTTAGCTATAGGAATGAGATCGGGTTGTTATGAAAGTTGTGAAATATTTAGCTTTCTGTTTATTTATTGTCTCTTCCTGAATCATAGCAGATTATAACTGACACTGAGTAGCTTTATAGTCTAATGAGACAATCTATTTAATCTTTCTTCTACGAGATTGTCTATACTTTATAGCGGGGCTAAGTCAGACACTGTTGGTCTTAAATATATTTCAGTTCAGCAAGTATTAATTTGTATTACACAATTAATAAATGCTTAACTAAGTTTTTTGAATGAATAAATGTGAGGCTCTTATAAAAATTATTCCAAAATTTTAAATAACTGCATTTAACCTCCTAATTGGGTCAAAATTCAGTCATCAACTTAAGAAGAGCTGATTAAAAAAAAAACTCTTGAGTATTTACAATTATCATTTACATCTCAGTGTATTTAAAATTACATACCTTTCTGCATATTAAGCAATTTTTTGTTTATCTCTAGATCAAAATATTGAGACTCTAAAATTGCTTTGGCTAATTTGTCTTTTTGTTTGTTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTTTCTGCATATTAAGCAATTT
55.63
ACTGCTTCATCTCACACTCA
56.49
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATACCTTTCTGCATATTAAGCAA
55.56
ACTGCTTCATCTCACACTCA
56.49
165
PCR template sequence:
CATACCTTTCTGCATATTAAGCAATTTTTTGTTTATCTCTAGATCAAAATATTGAGACTCTAAAATTGCTTTGGCTAATTTGTCTTTTTGTTTGTTTAAGGTAATGAAAAGGGAGTCTATTCATGTCAGTTTGTGCTAAGTTCTTTGAGTGTGAGATGAAGCAGTATGTGTGTTTGAAGTTCTGACTATTCTTTATTGAA
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-211-5p(1), mmu-miR-204-5p(1), mmu-miR-196a-5p(1), mmu-miR-203-3p(1), mmu-miR-320-3p(1), mmu-miR-340-5p(1), mmu-miR-335-3p(1), mmu-miR-376a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGTTTGTTTAAGGTAATGAAAAGGG
siRNA sets
TTTTCATTACCTTAAACAA, TCATTACCTTAAACAAACA, TTTCATTACCTTAAACAAA
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
0.962315027
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
Institute of Life sciences, Bhubaneswar, India
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