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mmu_circNf1_698
Basic information of circular RNA
PanCircBase ID:
mmu_circNf1_698
mm39_Chr. Position ID:
chr11|79437097|79439361|+
Gene name:
Nf1
Transcript:
ENSMUST00000108251.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
40,41,42,43
Exon/intron offsets:
0,699,1396,2202
Genomic length:
2264
Exon/intron sizes in nt:
141,280,215,62
Flanking exon/introns:
chr11:79436373-79437097|chr11:79439361-79439499
Splice length:
698
Other database IDs:
circAtlas: mmu-Nf1_0111
Human Ortholog IDs:
Mature spliced Sequence:
ATCACAGACCTGCTGGATGTTGTGCTTGACAGTTTCATCAAGACCAGTGCGACAGGAGGCTTAGGGTCTATCAAAGCTGAGGTGATGGCAGACACAGCTGTGGCTTTAGCTTCTGGAAATGTGAAATTGGTGTCGAGTAAGGTTATTGGAAGGATGTGTAAAATAATTGACAAGACTTGCTTATCCCCAACTCCAACTTTAGAACAACATCTTATGTGGGACGACATTGCCATTTTAGCCCGCTACATGCTGATGCTGTCCTTCAACAACTCCCTCGATGTGGCGGCTCATCTGCCCTATCTCTTCCATGTTGTCACTTTCTTAGTAGCCACAGGTCCCTTGTCCCTCCGAGCTTCCACACATGGGCTGCTCATCAATATCATTCACTCTCTGTGTACTTGTTCTCAGCTTCACTTTAGTGAAGAGACCAAGCAAGTTTTGAGGCTCAGTCTAACAGAGTTCTCGTTACCCAAATTTTACTTACTGTTTGGCATTAGCAAAGTCAAGTCGGCTGCTGTCATTGCCTTCCGTTCCAGTTACCGGGACCGCTCCTTCTCCCCTGGCTCCTATGAGAGGGAGACTTTTGCTTTGACGTCCCTGGAAACAGTCACAGAAGCTTTGTTGGAGATCATGGAGGCATGTATGAGAGATATTCCAACATGCAAGTGGCTGGATCAGTGGACAGAACTAGCTCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCAACATGCAAGTGGCTG
59.32
TGTGTCTGCCATCACCTCAG
59.68
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCAACATGCAAGTGGCTG
59.32
CTGTGTCTGCCATCACCTCA
59.68
143
PCR template sequence:
TGGAAACAGTCACAGAAGCTTTGTTGGAGATCATGGAGGCATGTATGAGAGATATTCCAACATGCAAGTGGCTGGATCAGTGGACAGAACTAGCTCAAAGATCACAGACCTGCTGGATGTTGTGCTTGACAGTTTCATCAAGACCAGTGCGACAGGAGGCTTAGGGTCTATCAAAGCTGAGGTGATGGCAGACACAGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-134-5p(1), mmu-miR-103-3p(1), mmu-miR-34c-5p(1), mmu-miR-23a-3p(1), mmu-miR-191-5p(1), mmu-miR-127-5p(1), mmu-miR-34b-5p(1), mmu-miR-107-3p(1), mmu-miR-188-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AACTAGCTCAAAGATCACAGACCTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNF1_698_ORF_1
1.0044
0.157463201
0.936518942
756
ORF sequence:
ATGTATGAGAGATATTCCAACATGCAAGTGGCTGGATCAGTGGACAGAACTAGCTCAAAGATCACAGACCTGCTGGATGTTGTGCTTGACAGTTTCATCAAGACCAGTGCGACAGGAGGCTTAGGGTCTATCAAAGCTGAGGTGATGGCAGACACAGCTGTGGCTTTAGCTTCTGGAAATGTGAAATTGGTGTCGAGTAAGGTTATTGGAAGGATGTGTAAAATAATTGACAAGACTTGCTTATCCCCAACTCCAACTTTAGAACAACATCTTATGTGGGACGACATTGCCATTTTAGCCCGCTACATGCTGATGCTGTCCTTCAACAACTCCCTCGATGTGGCGGCTCATCTGCCCTATCTCTTCCATGTTGTCACTTTCTTAGTAGCCACAGGTCCCTTGTCCCTCCGAGCTTCCACACATGGGCTGCTCATCAATATCATTCACTCTCTGTGTACTTGTTCTCAGCTTCACTTTAGTGAAGAGACCAAGCAAGTTTTGAGGCTCAGTCTAACAGAGTTCTCGTTACCCAAATTTTACTTACTGTTTGGCATTAGCAAAGTCAAGTCGGCTGCTGTCATTGCCTTCCGTTCCAGTTACCGGGACCGCTCCTTCTCCCCTGGCTCCTATGAGAGGGAGACTTTTGCTTTGACGTCCCTGGAAACAGTCACAGAAGCTTTGTTGGAGATCATGGAGGCATGTATGAGAGATATTCCAACATGCAAGTGGCTGGATCAGTGGACAGAACTAGCTCAA
Peptide sequence:
MYERYSNMQVAGSVDRTSSKITDLLDVVLDSFIKTSATGGLGSIKAEVMADTAVALASGNVKLVSSKVIGRMCKIIDKTCLSPTPTLEQHLMWDDIAILARYMLMLSFNNSLDVAAHLPYLFHVVTFLVATGPLSLRASTHGLLINIIHSLCTCSQLHFSEETKQVLRLSLTEFSLPKFYLLFGISKVKSAAVIAFRSSYRDRSFSPGSYERETFALTSLETVTEALLEIMEACMRDIPTCKWLDQWTELAQ
IRESfinder result
IRESfinder score
0.760399078
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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