top of page
mmu_circNf1_2339
Basic information of circular RNA
PanCircBase ID:
mmu_circNf1_2339
mm39_Chr. Position ID:
chr11|79325670|79345028|+
Gene name:
Nf1
Transcript:
ENSMUST00000219057.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
16,17,18,19,20,21,22,23,24,25,26,27,28,29,30
Exon/intron offsets:
0,1845,3842,6003,6784,7046,8924,9755,10179,10871,11961,12639,13280,18958,19254
Genomic length:
19358
Exon/intron sizes in nt:
80,12,41,62,25,07,48,40,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:79319517-79325670|chr11:79345028-79349596
Splice length:
2339
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GCTTTGCTGGTCCTTCATCAGTTAGATAGCATTGATCTCTGGAATCCTGACGCTCCTGTAGAGACATTCTGGGAAATCAGCTCACAAATGCTTTTTTACATCTGCAAGAAATTAACTAGCCATCAAATGCTTAGTAGCACAGAAATTCTCAAGTGGTTACGGGAAATTCTGATCTGCAGAAATAAATTTCTTCTTAAAAATAAGCAGGCAGATAGAAGCTCCTGTCATTCTCTCTACCTTTATGGAGTAGGATGTGAAATGTCTGCTACTGGAAATACCACTCAGATGTCAGTTGATCATGATGAGTTCCTGCGTGCCTGTACTCCTGGAGCATCTCTGCGGAAAGGAAGAGGGAATTCCTCCATGGATAGCACAGCAGGGTGCAGTGGAACCCCACCTATATGCCGACAAGCCCAGACCAAGCTAGAAGTGGCCTTATACATGTTTCTGTGGAATCCTGACACTGAAGCTGTTCTGGTTGCTATGTCCTGTTTCCGCCACCTCTGTGAAGAAGCAGATATTCGATGTGGGGTAGATGAAGTGTCAGTACACAACTTCTTGCCCAACTATAACACATTCATGGAATTTGCCTCAGTCAGCAATATGATGTCAACAGGAAGAGCAGCGCTTCAGAAAAGAGTGATGGCCCTGCTAAGGCGCATTGAGCACCCTACTGCAGGAAACATTGAGGCCTGGGAAGATACACATGCAAAGTGGGAACAGGCTACAAAACTAATCCTTAACTACCCAAAAGCCAAAATGGAAGATGGCCAGGCTGCAGAAAGTCTTCATAAGACCATTGTTAAGAGACGGATGTCCCATGTCAGTGGAGGAGGCTCCATAGACTTGTCTGACACAGACTCCCTGCAGGAGTGGATCAACATGACTGGCTTCCTTTGTGCCCTTGGTGGGGTGTGCCTGCAACAGAGAAGCAGCTCTGGCCTAGCGACATACAGCCCACCTATGGGCGCTGTCAGTGAACGCAAAGGGTCTATGATTTCTGTAATGTCTTCTGAAGGGAATATTGATTCACCTGTCAGCAGATTTATGGACCGGCTTCTGTCCTTAATGGTGTGTAACCACGAGAAAGTGGGGCTTCAGATACGGACCAATGTTAAGGACCTGGTGGGTCTGGAGTTGAGTCCTGCTCTGTATCCAATGCTGTTTAACAAACTGAAGAATACCATCAGCAAGTTTTTTGACTCTCAAGGACAGGTATTACTAAGTGACAGCAATACTCAGTTTGTAGAGCAAACCATAGCCATAATGAAAAACCTACTGGATAATCATACTGAAGGCAGCTCTGAGCATCTGGGACAAGCGAGCATTGAGACAATGATGCTAAATCTGGTCAGATACGTTCGTGTTCTTGGGAATATGGTCCATGCAATACAAATAAAAACAAAATTGTGTCAGTTAGTTGAAGTCATGATGGCAAGAAGAGATGACCTCTCGTTTTGTCAAGAGATGAAATTTAGGAATAAGATGGTAGAATATCTAACAGACTGGGTTATGGGAACATCAAACCAAGCAGCAGATGATGACATAAAATGTCTTACGAGAGATCTGGACCAAGCAAGCATGGAAGCAGTAGTTTCTCTCCTCGCTGGTCTTCCACTGCAGCCCGAAGAAGGAGATGGGGTGGAGCTGATGGAGGCCAAATCACAGTTATTCCTTAAGTACTTCACATTATTTATGAACCTTTTGAATGACTGTAGTGAAGTTGAAGATGAAAATGCACAAACGGGTGGCAGGAAACGTGGCATGTCTCGGAGGCTGGCATCCCTGAGGCACTGTACAGTGCTTGCAATGTCAAACTTACTCAATGCTAATGTGGACAGTGGACTCATGCACTCCATAGGCTTAGGTTATCACAAGGATCTTCAGACAAGAGCTACGTTTATGGAAGTTCTGACAAAAATCCTTCAACAAGGAACAGAATTCGATACACTTGCGGAAACGGTGTTGGCAGATCGATTTGAGAGACTTGTGGAACTGGTCACAATGATGGGAGACCAGGGAGAACTCCCTATAGCTATGGCTCTTGCCAATGTGGTCCCTTGTTCTCAGTGGGATGAGCTGGCTCGGGTTCTGGTCACTCTGTTTGATTCCCGGCATTTACTCTACCAGCTGCTCTGGAACATGTTTTCTAAGGAGGTAGAATTGGCAGACTCCATGCAGACTCTCTTTCGAGGCAACAGCTTGGCCAGTAAGATAATGACATTCTGCTTCAAGGTGTATGGTGCTACTTACCTACAAAAGCTCTTGGACCCTTTATTACGAGTCATCATCACATCTTCGGATTGGCAACATGTTAGCTTTGAAGTGGATCCTACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTACAAAAGCTCTTGGACCCT
59.96
GGAGCGTCAGGATTCCAGAG
59.9
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTACAAAAGCTCTTGGACCCT
59.96
CAGGAGCGTCAGGATTCCAG
60.18
145
PCR template sequence:
ATGGTGCTACTTACCTACAAAAGCTCTTGGACCCTTTATTACGAGTCATCATCACATCTTCGGATTGGCAACATGTTAGCTTTGAAGTGGATCCTACCAGGCTTTGCTGGTCCTTCATCAGTTAGATAGCATTGATCTCTGGAATCCTGACGCTCCTGTAGAGACATTCTGGGAAATCAGCTCACAAATGCTTTTTTACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-31-5p(2), mmu-miR-7b-5p(1), mmu-miR-103-3p(1), mmu-miR-223-3p(1), mmu-miR-335-5p(1), mmu-miR-7a-5p(1), mmu-miR-185-5p(1), mmu-miR-433-3p(1), mmu-miR-758-3p(1), mmu-miR-362-5p(1), mmu-miR-107-3p(1), mmu-miR-383-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-1198-5p(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TGGATCCTACCAGGCTTTGCTGGTCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNF1_2339_ORF_1
0.8919
0.104512814
0.999998084
2277
ORF sequence:
ATGCTTTTTTACATCTGCAAGAAATTAACTAGCCATCAAATGCTTAGTAGCACAGAAATTCTCAAGTGGTTACGGGAAATTCTGATCTGCAGAAATAAATTTCTTCTTAAAAATAAGCAGGCAGATAGAAGCTCCTGTCATTCTCTCTACCTTTATGGAGTAGGATGTGAAATGTCTGCTACTGGAAATACCACTCAGATGTCAGTTGATCATGATGAGTTCCTGCGTGCCTGTACTCCTGGAGCATCTCTGCGGAAAGGAAGAGGGAATTCCTCCATGGATAGCACAGCAGGGTGCAGTGGAACCCCACCTATATGCCGACAAGCCCAGACCAAGCTAGAAGTGGCCTTATACATGTTTCTGTGGAATCCTGACACTGAAGCTGTTCTGGTTGCTATGTCCTGTTTCCGCCACCTCTGTGAAGAAGCAGATATTCGATGTGGGGTAGATGAAGTGTCAGTACACAACTTCTTGCCCAACTATAACACATTCATGGAATTTGCCTCAGTCAGCAATATGATGTCAACAGGAAGAGCAGCGCTTCAGAAAAGAGTGATGGCCCTGCTAAGGCGCATTGAGCACCCTACTGCAGGAAACATTGAGGCCTGGGAAGATACACATGCAAAGTGGGAACAGGCTACAAAACTAATCCTTAACTACCCAAAAGCCAAAATGGAAGATGGCCAGGCTGCAGAAAGTCTTCATAAGACCATTGTTAAGAGACGGATGTCCCATGTCAGTGGAGGAGGCTCCATAGACTTGTCTGACACAGACTCCCTGCAGGAGTGGATCAACATGACTGGCTTCCTTTGTGCCCTTGGTGGGGTGTGCCTGCAACAGAGAAGCAGCTCTGGCCTAGCGACATACAGCCCACCTATGGGCGCTGTCAGTGAACGCAAAGGGTCTATGATTTCTGTAATGTCTTCTGAAGGGAATATTGATTCACCTGTCAGCAGATTTATGGACCGGCTTCTGTCCTTAATGGTGTGTAACCACGAGAAAGTGGGGCTTCAGATACGGACCAATGTTAAGGACCTGGTGGGTCTGGAGTTGAGTCCTGCTCTGTATCCAATGCTGTTTAACAAACTGAAGAATACCATCAGCAAGTTTTTTGACTCTCAAGGACAGGTATTACTAAGTGACAGCAATACTCAGTTTGTAGAGCAAACCATAGCCATAATGAAAAACCTACTGGATAATCATACTGAAGGCAGCTCTGAGCATCTGGGACAAGCGAGCATTGAGACAATGATGCTAAATCTGGTCAGATACGTTCGTGTTCTTGGGAATATGGTCCATGCAATACAAATAAAAACAAAATTGTGTCAGTTAGTTGAAGTCATGATGGCAAGAAGAGATGACCTCTCGTTTTGTCAAGAGATGAAATTTAGGAATAAGATGGTAGAATATCTAACAGACTGGGTTATGGGAACATCAAACCAAGCAGCAGATGATGACATAAAATGTCTTACGAGAGATCTGGACCAAGCAAGCATGGAAGCAGTAGTTTCTCTCCTCGCTGGTCTTCCACTGCAGCCCGAAGAAGGAGATGGGGTGGAGCTGATGGAGGCCAAATCACAGTTATTCCTTAAGTACTTCACATTATTTATGAACCTTTTGAATGACTGTAGTGAAGTTGAAGATGAAAATGCACAAACGGGTGGCAGGAAACGTGGCATGTCTCGGAGGCTGGCATCCCTGAGGCACTGTACAGTGCTTGCAATGTCAAACTTACTCAATGCTAATGTGGACAGTGGACTCATGCACTCCATAGGCTTAGGTTATCACAAGGATCTTCAGACAAGAGCTACGTTTATGGAAGTTCTGACAAAAATCCTTCAACAAGGAACAGAATTCGATACACTTGCGGAAACGGTGTTGGCAGATCGATTTGAGAGACTTGTGGAACTGGTCACAATGATGGGAGACCAGGGAGAACTCCCTATAGCTATGGCTCTTGCCAATGTGGTCCCTTGTTCTCAGTGGGATGAGCTGGCTCGGGTTCTGGTCACTCTGTTTGATTCCCGGCATTTACTCTACCAGCTGCTCTGGAACATGTTTTCTAAGGAGGTAGAATTGGCAGACTCCATGCAGACTCTCTTTCGAGGCAACAGCTTGGCCAGTAAGATAATGACATTCTGCTTCAAGGTGTATGGTGCTACTTACCTACAAAAGCTCTTGGACCCTTTATTACGAGTCATCATCACATCTTCGGATTGGCAACATGTTAGCTTTGAAGTGGATCCTACCAGGCTTTGCTGGTCCTTCATCAGTTAG
Peptide sequence:
MLFYICKKLTSHQMLSSTEILKWLREILICRNKFLLKNKQADRSSCHSLYLYGVGCEMSATGNTTQMSVDHDEFLRACTPGASLRKGRGNSSMDSTAGCSGTPPICRQAQTKLEVALYMFLWNPDTEAVLVAMSCFRHLCEEADIRCGVDEVSVHNFLPNYNTFMEFASVSNMMSTGRAALQKRVMALLRRIEHPTAGNIEAWEDTHAKWEQATKLILNYPKAKMEDGQAAESLHKTIVKRRMSHVSGGGSIDLSDTDSLQEWINMTGFLCALGGVCLQQRSSSGLATYSPPMGAVSERKGSMISVMSSEGNIDSPVSRFMDRLLSLMVCNHEKVGLQIRTNVKDLVGLELSPALYPMLFNKLKNTISKFFDSQGQVLLSDSNTQFVEQTIAIMKNLLDNHTEGSSEHLGQASIETMMLNLVRYVRVLGNMVHAIQIKTKLCQLVEVMMARRDDLSFCQEMKFRNKMVEYLTDWVMGTSNQAADDDIKCLTRDLDQASMEAVVSLLAGLPLQPEEGDGVELMEAKSQLFLKYFTLFMNLLNDCSEVEDENAQTGGRKRGMSRRLASLRHCTVLAMSNLLNANVDSGLMHSIGLGYHKDLQTRATFMEVLTKILQQGTEFDTLAETVLADRFERLVELVTMMGDQGELPIAMALANVVPCSQWDELARVLVTLFDSRHLLYQLLWNMFSKEVELADSMQTLFRGNSLASKIMTFCFKVYGATYLQKLLDPLLRVIITSSDWQHVSFEVDPTRLCWSFIS
IRESfinder result
IRESfinder score
0.524038932
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page