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mmu_circNf1_694
Basic information of circular RNA
PanCircBase ID:
mmu_circNf1_694
mm39_Chr. Position ID:
chr11|79327515|79332800|+
Gene name:
Nf1
Transcript:
ENSMUST00000219057.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
17,18,19,20,21
Exon/intron offsets:
0,1997,4158,4939,5201
Genomic length:
5285
Exon/intron sizes in nt:
124,162,250,74,84
Flanking exon/introns:
chr11:79325750-79327515|chr11:79332800-79334594
Splice length:
694
Other database IDs:
circBase: hsa_circ_0003586, circAtlas: hsa-NF1_0118, CIRCpedia: HSA_CIRCpedia_20078
Human Ortholog IDs:
Mature spliced Sequence:
CTCACAAATGCTTTTTTACATCTGCAAGAAATTAACTAGCCATCAAATGCTTAGTAGCACAGAAATTCTCAAGTGGTTACGGGAAATTCTGATCTGCAGAAATAAATTTCTTCTTAAAAATAAGCAGGCAGATAGAAGCTCCTGTCATTCTCTCTACCTTTATGGAGTAGGATGTGAAATGTCTGCTACTGGAAATACCACTCAGATGTCAGTTGATCATGATGAGTTCCTGCGTGCCTGTACTCCTGGAGCATCTCTGCGGAAAGGAAGAGGGAATTCCTCCATGGATAGCACAGCAGGGTGCAGTGGAACCCCACCTATATGCCGACAAGCCCAGACCAAGCTAGAAGTGGCCTTATACATGTTTCTGTGGAATCCTGACACTGAAGCTGTTCTGGTTGCTATGTCCTGTTTCCGCCACCTCTGTGAAGAAGCAGATATTCGATGTGGGGTAGATGAAGTGTCAGTACACAACTTCTTGCCCAACTATAACACATTCATGGAATTTGCCTCAGTCAGCAATATGATGTCAACAGGAAGAGCAGCGCTTCAGAAAAGAGTGATGGCCCTGCTAAGGCGCATTGAGCACCCTACTGCAGGAAACATTGAGGCCTGGGAAGATACACATGCAAAGTGGGAACAGGCTACAAAACTAATCCTTAACTACCCAAAAGCCAAAATGGAAGATGGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATGCAAAGTGGGAACAGGC
60.04
CTGCAGATCAGAATTTCCCGT
58.36
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCAAAGTGGGAACAGGCT
60.18
CTGCAGATCAGAATTTCCCGT
58.36
167
PCR template sequence:
TGCAGGAAACATTGAGGCCTGGGAAGATACACATGCAAAGTGGGAACAGGCTACAAAACTAATCCTTAACTACCCAAAAGCCAAAATGGAAGATGGCCAGCTCACAAATGCTTTTTTACATCTGCAAGAAATTAACTAGCCATCAAATGCTTAGTAGCACAGAAATTCTCAAGTGGTTACGGGAAATTCTGATCTGCAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-31-5p(1), mmu-miR-433-3p(1), mmu-miR-383-5p(1), mmu-miR-1198-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GGAAGATGGCCAGCTCACAAATGCTT
siRNA sets
ATTTGTGAGCTGGCCATCT, TTGTGAGCTGGCCATCTTC, TTTGTGAGCTGGCCATCTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNF1_694_ORF_1
0.6311
0.066083306
0.803336437
726
ORF sequence:
ATGCTTTTTTACATCTGCAAGAAATTAACTAGCCATCAAATGCTTAGTAGCACAGAAATTCTCAAGTGGTTACGGGAAATTCTGATCTGCAGAAATAAATTTCTTCTTAAAAATAAGCAGGCAGATAGAAGCTCCTGTCATTCTCTCTACCTTTATGGAGTAGGATGTGAAATGTCTGCTACTGGAAATACCACTCAGATGTCAGTTGATCATGATGAGTTCCTGCGTGCCTGTACTCCTGGAGCATCTCTGCGGAAAGGAAGAGGGAATTCCTCCATGGATAGCACAGCAGGGTGCAGTGGAACCCCACCTATATGCCGACAAGCCCAGACCAAGCTAGAAGTGGCCTTATACATGTTTCTGTGGAATCCTGACACTGAAGCTGTTCTGGTTGCTATGTCCTGTTTCCGCCACCTCTGTGAAGAAGCAGATATTCGATGTGGGGTAGATGAAGTGTCAGTACACAACTTCTTGCCCAACTATAACACATTCATGGAATTTGCCTCAGTCAGCAATATGATGTCAACAGGAAGAGCAGCGCTTCAGAAAAGAGTGATGGCCCTGCTAAGGCGCATTGAGCACCCTACTGCAGGAAACATTGAGGCCTGGGAAGATACACATGCAAAGTGGGAACAGGCTACAAAACTAATCCTTAACTACCCAAAAGCCAAAATGGAAGATGGCCAGCTCACAAATGCTTTTTTACATCTGCAAGAAATTAACTAG
Peptide sequence:
MLFYICKKLTSHQMLSSTEILKWLREILICRNKFLLKNKQADRSSCHSLYLYGVGCEMSATGNTTQMSVDHDEFLRACTPGASLRKGRGNSSMDSTAGCSGTPPICRQAQTKLEVALYMFLWNPDTEAVLVAMSCFRHLCEEADIRCGVDEVSVHNFLPNYNTFMEFASVSNMMSTGRAALQKRVMALLRRIEHPTAGNIEAWEDTHAKWEQATKLILNYPKAKMEDGQLTNAFLHLQEIN
IRESfinder result
IRESfinder score
0.494699203
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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