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mmu_circNbas_411
Basic information of circular RNA
PanCircBase ID:
mmu_circNbas_411
mm39_Chr. Position ID:
chr12|13329388|13339981|+
Gene name:
Nbas
Transcript:
ENSMUST00000042953.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,7,8,9
Exon/intron offsets:
0,5795,9283,10494
Genomic length:
10593
Exon/intron sizes in nt:
44,134,134,99
Flanking exon/introns:
chr12:13324223-13329388|chr12:13339981-13350093
Splice length:
411
Other database IDs:
CIRCpedia: MMU_CIRCpedia_226386, circAtlas: mmu-Nbas_0024
Human Ortholog IDs:
Mature spliced Sequence:
GTCTGCAAAAGATGATTTTACATCAATTATTGGGAAATGTCAAGTTCCAAAAGACCCAAAGCCCCAGTGGAGACGGGTAGCATGGAGTTACGACTGCACACTGCTGGCCTATGCCGAGAGCACAGGGACTGTAAGGGTGTTTGATCTTATGGGCAGCGAGCTCTTTGTCATTGCCCCGGCATCTGTCTTTGCTGGGGACTTAAGCTACGCCATTGCTGGGTTGGTATTTTTAGAATACAAAGCCAGTGCACAGTGGTCTGCAGAGCTCTTGGTCATCAATTACCGGGGAGAACTTAGAAGTTACCTTGTCAGTGTTGGAACAAATCAGAGCTACCAAGAGAGTCACAGTTTCAGCTTTAGTGGTCATTATCCGCATGGAATAAATACTGCTATTTACCACCCTGGTCATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGGTCATTATCCGCATGG
57.74
CGTAACTCCATGCTACCCGT
59.54
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGGTCATTATCCGCATGG
57.74
TGCAGTCGTAACTCCATGCT
59.39
151
PCR template sequence:
GTGTTGGAACAAATCAGAGCTACCAAGAGAGTCACAGTTTCAGCTTTAGTGGTCATTATCCGCATGGAATAAATACTGCTATTTACCACCCTGGTCATAGGTCTGCAAAAGATGATTTTACATCAATTATTGGGAAATGTCAAGTTCCAAAAGACCCAAAGCCCCAGTGGAGACGGGTAGCATGGAGTTACGACTGCACA
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-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-320-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCCTGGTCATAGGTCTGCAAAAGAT
siRNA sets
TTTTGCAGACCTATGACCA, CTTTTGCAGACCTATGACC, TCTTTTGCAGACCTATGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNBAS_411_ORF_1
0.9377
0.068598893
0.833591927
672
ORF sequence:
ATGGGCAGCGAGCTCTTTGTCATTGCCCCGGCATCTGTCTTTGCTGGGGACTTAAGCTACGCCATTGCTGGGTTGGTATTTTTAGAATACAAAGCCAGTGCACAGTGGTCTGCAGAGCTCTTGGTCATCAATTACCGGGGAGAACTTAGAAGTTACCTTGTCAGTGTTGGAACAAATCAGAGCTACCAAGAGAGTCACAGTTTCAGCTTTAGTGGTCATTATCCGCATGGAATAAATACTGCTATTTACCACCCTGGTCATAGGTCTGCAAAAGATGATTTTACATCAATTATTGGGAAATGTCAAGTTCCAAAAGACCCAAAGCCCCAGTGGAGACGGGTAGCATGGAGTTACGACTGCACACTGCTGGCCTATGCCGAGAGCACAGGGACTGTAAGGGTGTTTGATCTTATGGGCAGCGAGCTCTTTGTCATTGCCCCGGCATCTGTCTTTGCTGGGGACTTAAGCTACGCCATTGCTGGGTTGGTATTTTTAGAATACAAAGCCAGTGCACAGTGGTCTGCAGAGCTCTTGGTCATCAATTACCGGGGAGAACTTAGAAGTTACCTTGTCAGTGTTGGAACAAATCAGAGCTACCAAGAGAGTCACAGTTTCAGCTTTAGTGGTCATTATCCGCATGGAATAAATACTGCTATTTACCACCCTGGTCAT
Peptide sequence:
MGSELFVIAPASVFAGDLSYAIAGLVFLEYKASAQWSAELLVINYRGELRSYLVSVGTNQSYQESHSFSFSGHYPHGINTAIYHPGHRSAKDDFTSIIGKCQVPKDPKPQWRRVAWSYDCTLLAYAESTGTVRVFDLMGSELFVIAPASVFAGDLSYAIAGLVFLEYKASAQWSAELLVINYRGELRSYLVSVGTNQSYQESHSFSFSGHYPHGINTAIYHPGH
IRESfinder result
IRESfinder score
0.709658662
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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