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mmu_circNf1_426
Basic information of circular RNA
PanCircBase ID:
mmu_circNf1_426
mm39_Chr. Position ID:
chr11|79446306|79450388|+
Gene name:
Nf1
Transcript:
ENSMUST00000108251.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
48,49,50
Exon/intron offsets:
0,1218,3924
Genomic length:
4082
Exon/intron sizes in nt:
13,21,36,158
Flanking exon/introns:
chr11:79444823-79446306|chr11:79450388-79455649
Splice length:
426
Other database IDs:
circAtlas: mmu-Nf1_0035
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_20092
Human Ortholog IDs:
Mature spliced Sequence:
GGTACAGGCATCCTTCACCTGCCATTGTTGCAAGAACAGTCAGAATTTTGCATACACTACTAACTCTCGTTAACAAACATAGAAATTGTGACAAATTTGAGGTGAATACACAGAGTGTGGCTTACTTAGCAGCTCTACTCACAGTGTCTGAAGAGGTTCGAAGTCGCTGTAGCCTCAAGCATAGGAAGTCCCTTCTTCTTACTGATATTTCAATGGAAAATGTTCCTATGGATACATATCCCATTCATCACGGTGACCCCAGCTATAGGACACTAAAGGAGACCCAGCCATGGTCCTCTCCCAAAGGTTCAGAAGGATACCTTGCAGCCACCTACCCAGCTGTAGGCCAAACCAGTCCCCGAGCCAGGAAATCCATGAGCTTGGATATGGGACAGCCTTCTCAGGCCAACACAAAAAAATTGCTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCACCTACCCAGCTGTAG
59.48
ACTGTTCTTGCAACAATGGCA
59.24
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCACCTACCCAGCTGTAG
59.48
GACTGTTCTTGCAACAATGGCA
60.22
141
PCR template sequence:
GCCACCTACCCAGCTGTAGGCCAAACCAGTCCCCGAGCCAGGAAATCCATGAGCTTGGATATGGGACAGCCTTCTCAGGCCAACACAAAAAAATTGCTTGGGTACAGGCATCCTTCACCTGCCATTGTTGCAAGAACAGTCAGAATTTTGCATACACTACTAACTCTCGTTAACAAACATAGAAATTGTGACAAATTTGA
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-149-5p(1), mmu-miR-29b-1-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAAAATTGCTTGGGTACAGGCATCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNF1_426_ORF_1
0.856
0.036139888
0.747969467
639
ORF sequence:
ATGGAAAATGTTCCTATGGATACATATCCCATTCATCACGGTGACCCCAGCTATAGGACACTAAAGGAGACCCAGCCATGGTCCTCTCCCAAAGGTTCAGAAGGATACCTTGCAGCCACCTACCCAGCTGTAGGCCAAACCAGTCCCCGAGCCAGGAAATCCATGAGCTTGGATATGGGACAGCCTTCTCAGGCCAACACAAAAAAATTGCTTGGGTACAGGCATCCTTCACCTGCCATTGTTGCAAGAACAGTCAGAATTTTGCATACACTACTAACTCTCGTTAACAAACATAGAAATTGTGACAAATTTGAGGTGAATACACAGAGTGTGGCTTACTTAGCAGCTCTACTCACAGTGTCTGAAGAGGTTCGAAGTCGCTGTAGCCTCAAGCATAGGAAGTCCCTTCTTCTTACTGATATTTCAATGGAAAATGTTCCTATGGATACATATCCCATTCATCACGGTGACCCCAGCTATAGGACACTAAAGGAGACCCAGCCATGGTCCTCTCCCAAAGGTTCAGAAGGATACCTTGCAGCCACCTACCCAGCTGTAGGCCAAACCAGTCCCCGAGCCAGGAAATCCATGAGCTTGGATATGGGACAGCCTTCTCAGGCCAACACAAAAAAATTGCTT
Peptide sequence:
MENVPMDTYPIHHGDPSYRTLKETQPWSSPKGSEGYLAATYPAVGQTSPRARKSMSLDMGQPSQANTKKLLGYRHPSPAIVARTVRILHTLLTLVNKHRNCDKFEVNTQSVAYLAALLTVSEEVRSRCSLKHRKSLLLTDISMENVPMDTYPIHHGDPSYRTLKETQPWSSPKGSEGYLAATYPAVGQTSPRARKSMSLDMGQPSQANTKKLL
IRESfinder result
IRESfinder score
0.729651752
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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