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mmu_circNtpcr_260
Basic information of circular RNA
PanCircBase ID:
mmu_circNtpcr_260
mm39_Chr. Position ID:
chr8|126462806|126464158|+
Gene name:
Ntpcr
Transcript:
ENSMUST00000146055.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,1255
Genomic length:
1352
Exon/intron sizes in nt:
163,97
Flanking exon/introns:
chr8:126459970-126462806|chr8:126464158-126471974
Splice length:
260
Other database IDs:
circAtlas: mmu-Ntpcr_0002
circBase: hsa_circ_0112403, circAtlas: hsa-NTPCR_0001, CIRCpedia: HSA_CIRCpedia_30547
Human Ortholog IDs:
Mature spliced Sequence:
GGGTTGGCAAAACAACCTTGATCCAGAAAGCCATCGAGGTCCTGCAGTCCTCCGGGCTGCCCGTGGATGGATTTTACACACAAGAAGTCAGGCAGGAAGGGAAGAGGATAGGATTCGATGTCGTCACCCTGTCTGGTGCCCAGGGGCCTCTGTCCAGAGTTGGGTCACAGCCTCTACCTGGAAAGCCCGAGTGTCGAGTGGGGCAGTATGTGGTGAACTTGGATTCTTTTGAGCAGTTGGCACTTCCTGTCCTAAGAAAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGGCAGTATGTGGTGAAC
59.96
TGTAAAATCCATCCACGGGCA
60
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGGGCAGTATGTGGTGAA
59.96
TGTAAAATCCATCCACGGGCA
60
141
PCR template sequence:
TGGGTCACAGCCTCTACCTGGAAAGCCCGAGTGTCGAGTGGGGCAGTATGTGGTGAACTTGGATTCTTTTGAGCAGTTGGCACTTCCTGTCCTAAGAAACGGGTTGGCAAAACAACCTTGATCCAGAAAGCCATCGAGGTCCTGCAGTCCTCCGGGCTGCCCGTGGATGGATTTTACACACAAGAAGTCAGGCAGGAAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTCCTAAGAAACGGGTTGGCAAAAC
siRNA sets
GTTTTGCCAACCCGTTTCT, TTTGCCAACCCGTTTCTTA, TTGCCAACCCGTTTCTTAG
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
0.53535772
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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