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mmu_circNf1_636
Basic information of circular RNA
PanCircBase ID:
mmu_circNf1_636
mm39_Chr. Position ID:
chr11|79437097|79438708|+
Gene name:
Nf1
Transcript:
ENSMUST00000108251.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
40,41,42
Exon/intron offsets:
0,699,1396
Genomic length:
1611
Exon/intron sizes in nt:
14,12,80,215
Flanking exon/introns:
chr11:79436373-79437097|chr11:79438708-79439299
Splice length:
636
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATCACAGACCTGCTGGATGTTGTGCTTGACAGTTTCATCAAGACCAGTGCGACAGGAGGCTTAGGGTCTATCAAAGCTGAGGTGATGGCAGACACAGCTGTGGCTTTAGCTTCTGGAAATGTGAAATTGGTGTCGAGTAAGGTTATTGGAAGGATGTGTAAAATAATTGACAAGACTTGCTTATCCCCAACTCCAACTTTAGAACAACATCTTATGTGGGACGACATTGCCATTTTAGCCCGCTACATGCTGATGCTGTCCTTCAACAACTCCCTCGATGTGGCGGCTCATCTGCCCTATCTCTTCCATGTTGTCACTTTCTTAGTAGCCACAGGTCCCTTGTCCCTCCGAGCTTCCACACATGGGCTGCTCATCAATATCATTCACTCTCTGTGTACTTGTTCTCAGCTTCACTTTAGTGAAGAGACCAAGCAAGTTTTGAGGCTCAGTCTAACAGAGTTCTCGTTACCCAAATTTTACTTACTGTTTGGCATTAGCAAAGTCAAGTCGGCTGCTGTCATTGCCTTCCGTTCCAGTTACCGGGACCGCTCCTTCTCCCCTGGCTCCTATGAGAGGGAGACTTTTGCTTTGACGTCCCTGGAAACAGTCACAGAAGCTTTGTTGGAGATCATGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTCTCCCCTGGCTCCTAT
60.1
GTCTGCCATCACCTCAGCTT
60.04
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTCTCCCCTGGCTCCTAT
60.1
CCTGTCGCACTGGTCTTGAT
60.04
142
PCR template sequence:
TTACCGGGACCGCTCCTTCTCCCCTGGCTCCTATGAGAGGGAGACTTTTGCTTTGACGTCCCTGGAAACAGTCACAGAAGCTTTGTTGGAGATCATGGAGATCACAGACCTGCTGGATGTTGTGCTTGACAGTTTCATCAAGACCAGTGCGACAGGAGGCTTAGGGTCTATCAAAGCTGAGGTGATGGCAGACACAGCTG
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
GGAGATCATGGAGATCACAGACCTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNF1_636_ORF_1
1.0454
0.164228954
0.997310458
1188
ORF sequence:
ATGGCAGACACAGCTGTGGCTTTAGCTTCTGGAAATGTGAAATTGGTGTCGAGTAAGGTTATTGGAAGGATGTGTAAAATAATTGACAAGACTTGCTTATCCCCAACTCCAACTTTAGAACAACATCTTATGTGGGACGACATTGCCATTTTAGCCCGCTACATGCTGATGCTGTCCTTCAACAACTCCCTCGATGTGGCGGCTCATCTGCCCTATCTCTTCCATGTTGTCACTTTCTTAGTAGCCACAGGTCCCTTGTCCCTCCGAGCTTCCACACATGGGCTGCTCATCAATATCATTCACTCTCTGTGTACTTGTTCTCAGCTTCACTTTAGTGAAGAGACCAAGCAAGTTTTGAGGCTCAGTCTAACAGAGTTCTCGTTACCCAAATTTTACTTACTGTTTGGCATTAGCAAAGTCAAGTCGGCTGCTGTCATTGCCTTCCGTTCCAGTTACCGGGACCGCTCCTTCTCCCCTGGCTCCTATGAGAGGGAGACTTTTGCTTTGACGTCCCTGGAAACAGTCACAGAAGCTTTGTTGGAGATCATGGAGATCACAGACCTGCTGGATGTTGTGCTTGACAGTTTCATCAAGACCAGTGCGACAGGAGGCTTAGGGTCTATCAAAGCTGAGGTGATGGCAGACACAGCTGTGGCTTTAGCTTCTGGAAATGTGAAATTGGTGTCGAGTAAGGTTATTGGAAGGATGTGTAAAATAATTGACAAGACTTGCTTATCCCCAACTCCAACTTTAGAACAACATCTTATGTGGGACGACATTGCCATTTTAGCCCGCTACATGCTGATGCTGTCCTTCAACAACTCCCTCGATGTGGCGGCTCATCTGCCCTATCTCTTCCATGTTGTCACTTTCTTAGTAGCCACAGGTCCCTTGTCCCTCCGAGCTTCCACACATGGGCTGCTCATCAATATCATTCACTCTCTGTGTACTTGTTCTCAGCTTCACTTTAGTGAAGAGACCAAGCAAGTTTTGAGGCTCAGTCTAACAGAGTTCTCGTTACCCAAATTTTACTTACTGTTTGGCATTAGCAAAGTCAAGTCGGCTGCTGTCATTGCCTTCCGTTCCAGTTACCGGGACCGCTCCTTCTCCCCTGGCTCCTATGAGAGGGAGACTTTTGCTTTGACGTCCCTGGAAACAGTCACAGAAGCTTTGTTGGAGATCATGGAG
Peptide sequence:
MADTAVALASGNVKLVSSKVIGRMCKIIDKTCLSPTPTLEQHLMWDDIAILARYMLMLSFNNSLDVAAHLPYLFHVVTFLVATGPLSLRASTHGLLINIIHSLCTCSQLHFSEETKQVLRLSLTEFSLPKFYLLFGISKVKSAAVIAFRSSYRDRSFSPGSYERETFALTSLETVTEALLEIMEITDLLDVVLDSFIKTSATGGLGSIKAEVMADTAVALASGNVKLVSSKVIGRMCKIIDKTCLSPTPTLEQHLMWDDIAILARYMLMLSFNNSLDVAAHLPYLFHVVTFLVATGPLSLRASTHGLLINIIHSLCTCSQLHFSEETKQVLRLSLTEFSLPKFYLLFGISKVKSAAVIAFRSSYRDRSFSPGSYERETFALTSLETVTEALLEIME
IRESfinder result
IRESfinder score
0.781324021
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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