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mmu_circNt5c2_232
Basic information of circular RNA
PanCircBase ID:
mmu_circNt5c2_232
mm39_Chr. Position ID:
chr19|46882959|46886108|-
Gene name:
Nt5c2
Transcript:
ENSMUST00000235234.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
10,9,8
Exon/intron offsets:
0,1987,3055
Genomic length:
3149
Exon/intron sizes in nt:
84,54,94
Flanking exon/introns:
chr19:46881999-46882959|chr19:46886108-46887060
Splice length:
232
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTGTGACACAGGATTTAAAGATGGGGACCTCTTCATGTCCTACCGTAGCATGTTCCAGGACGTAAGAGACGCAGTGGACTGGGTCCATTACAAGGGCTCCCTTAAGGAGAAGACGGTTGAAAATCTTGAGAAGTATGTCGTCAAGGATGGCAAGTTGCCGTTGCTTCTGAGCCGAATGAAGGAAGTAGGGAAAGTGTTTCTGGCTACTAACAGTGACTATAAGTACACAGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTCAAGGATGGCAAGTTGC
60.11
ACGTCCTGGAACATGCTACG
60.11
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGTCAAGGATGGCAAGTTGC
60.11
GTCCTGGAACATGCTACGGT
59.75
155
PCR template sequence:
GTATGTCGTCAAGGATGGCAAGTTGCCGTTGCTTCTGAGCCGAATGAAGGAAGTAGGGAAAGTGTTTCTGGCTACTAACAGTGACTATAAGTACACAGATTTGTGACACAGGATTTAAAGATGGGGACCTCTTCATGTCCTACCGTAGCATGTTCCAGGACGTAAGAGACGCAGTGGACTGGGTCCATTACAAGGGCTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-205-5p(1), mmu-miR-24-3p(1), mmu-miR-676-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAAGTACACAGATTTGTGACACAGGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNT5C2_232_ORF_1
1.1269
0.350512926
0.437058793
204
ORF sequence:
ATGTCCTACCGTAGCATGTTCCAGGACGTAAGAGACGCAGTGGACTGGGTCCATTACAAGGGCTCCCTTAAGGAGAAGACGGTTGAAAATCTTGAGAAGTATGTCGTCAAGGATGGCAAGTTGCCGTTGCTTCTGAGCCGAATGAAGGAAGTAGGGAAAGTGTTTCTGGCTACTAACAGTGACTATAAGTACACAGATTTGTGA
Peptide sequence:
MSYRSMFQDVRDAVDWVHYKGSLKEKTVENLEKYVVKDGKLPLLLSRMKEVGKVFLATNSDYKYTDL
IRESfinder result
IRESfinder score
0.35215744
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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