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mmu_circNf1_2475
Basic information of circular RNA
PanCircBase ID:
mmu_circNf1_2475
mm39_Chr. Position ID:
chr11|79325670|79349732|+
Gene name:
Nf1
Transcript:
ENSMUST00000108251.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
16
Exon/intron indexes:
15,16,17,18,19,20,21,22,23,24,25,26,27,28,29,30
Exon/intron offsets:
0,1845,3842,6003,6784,7046,8924,9755,10179,10871,11961,12639,13280,18958,19254,23926
Genomic length:
24062
Exon/intron sizes in nt:
8,01,24,16,22,50,74,84,00,00,00,00,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:79319517-79325670|chr11:79349732-79359542
Splice length:
2475
Other database IDs:
CIRCpedia: MMU_CIRCpedia_30154, circAtlas: mmu-Nf1_0023
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_367876
Human Ortholog IDs:
Mature spliced Sequence:
GCTTTGCTGGTCCTTCATCAGTTAGATAGCATTGATCTCTGGAATCCTGACGCTCCTGTAGAGACATTCTGGGAAATCAGCTCACAAATGCTTTTTTACATCTGCAAGAAATTAACTAGCCATCAAATGCTTAGTAGCACAGAAATTCTCAAGTGGTTACGGGAAATTCTGATCTGCAGAAATAAATTTCTTCTTAAAAATAAGCAGGCAGATAGAAGCTCCTGTCATTCTCTCTACCTTTATGGAGTAGGATGTGAAATGTCTGCTACTGGAAATACCACTCAGATGTCAGTTGATCATGATGAGTTCCTGCGTGCCTGTACTCCTGGAGCATCTCTGCGGAAAGGAAGAGGGAATTCCTCCATGGATAGCACAGCAGGGTGCAGTGGAACCCCACCTATATGCCGACAAGCCCAGACCAAGCTAGAAGTGGCCTTATACATGTTTCTGTGGAATCCTGACACTGAAGCTGTTCTGGTTGCTATGTCCTGTTTCCGCCACCTCTGTGAAGAAGCAGATATTCGATGTGGGGTAGATGAAGTGTCAGTACACAACTTCTTGCCCAACTATAACACATTCATGGAATTTGCCTCAGTCAGCAATATGATGTCAACAGGAAGAGCAGCGCTTCAGAAAAGAGTGATGGCCCTGCTAAGGCGCATTGAGCACCCTACTGCAGGAAACATTGAGGCCTGGGAAGATACACATGCAAAGTGGGAACAGGCTACAAAACTAATCCTTAACTACCCAAAAGCCAAAATGGAAGATGGCCAGGCTGCAGAAAGTCTTCATAAGACCATTGTTAAGAGACGGATGTCCCATGTCAGTGGAGGAGGCTCCATAGACTTGTCTGACACAGACTCCCTGCAGGAGTGGATCAACATGACTGGCTTCCTTTGTGCCCTTGGTGGGGTGTGCCTGCAACAGAGAAGCAGCTCTGGCCTAGCGACATACAGCCCACCTATGGGCGCTGTCAGTGAACGCAAAGGGTCTATGATTTCTGTAATGTCTTCTGAAGGGAATATTGATTCACCTGTCAGCAGATTTATGGACCGGCTTCTGTCCTTAATGGTGTGTAACCACGAGAAAGTGGGGCTTCAGATACGGACCAATGTTAAGGACCTGGTGGGTCTGGAGTTGAGTCCTGCTCTGTATCCAATGCTGTTTAACAAACTGAAGAATACCATCAGCAAGTTTTTTGACTCTCAAGGACAGGTATTACTAAGTGACAGCAATACTCAGTTTGTAGAGCAAACCATAGCCATAATGAAAAACCTACTGGATAATCATACTGAAGGCAGCTCTGAGCATCTGGGACAAGCGAGCATTGAGACAATGATGCTAAATCTGGTCAGATACGTTCGTGTTCTTGGGAATATGGTCCATGCAATACAAATAAAAACAAAATTGTGTCAGTTAGTTGAAGTCATGATGGCAAGAAGAGATGACCTCTCGTTTTGTCAAGAGATGAAATTTAGGAATAAGATGGTAGAATATCTAACAGACTGGGTTATGGGAACATCAAACCAAGCAGCAGATGATGACATAAAATGTCTTACGAGAGATCTGGACCAAGCAAGCATGGAAGCAGTAGTTTCTCTCCTCGCTGGTCTTCCACTGCAGCCCGAAGAAGGAGATGGGGTGGAGCTGATGGAGGCCAAATCACAGTTATTCCTTAAGTACTTCACATTATTTATGAACCTTTTGAATGACTGTAGTGAAGTTGAAGATGAAAATGCACAAACGGGTGGCAGGAAACGTGGCATGTCTCGGAGGCTGGCATCCCTGAGGCACTGTACAGTGCTTGCAATGTCAAACTTACTCAATGCTAATGTGGACAGTGGACTCATGCACTCCATAGGCTTAGGTTATCACAAGGATCTTCAGACAAGAGCTACGTTTATGGAAGTTCTGACAAAAATCCTTCAACAAGGAACAGAATTCGATACACTTGCGGAAACGGTGTTGGCAGATCGATTTGAGAGACTTGTGGAACTGGTCACAATGATGGGAGACCAGGGAGAACTCCCTATAGCTATGGCTCTTGCCAATGTGGTCCCTTGTTCTCAGTGGGATGAGCTGGCTCGGGTTCTGGTCACTCTGTTTGATTCCCGGCATTTACTCTACCAGCTGCTCTGGAACATGTTTTCTAAGGAGGTAGAATTGGCAGACTCCATGCAGACTCTCTTTCGAGGCAACAGCTTGGCCAGTAAGATAATGACATTCTGCTTCAAGGTGTATGGTGCTACTTACCTACAAAAGCTCTTGGACCCTTTATTACGAGTCATCATCACATCTTCGGATTGGCAACATGTTAGCTTTGAAGTGGATCCTACCAGGTTAGAACCCTCTGAGAGCCTTGAGGAGAACCAGAGGAACCTCCTTCAGATGACAGAGAAGTTCTTCCATGCCATCATCAGCTCTTCCTCAGAATTCCCCTCACAGCTTCGAAGTGTCTGCCATTGTTTGTACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAGAAGTTCTTCCATGCCA
59.63
GGAGCGTCAGGATTCCAGAG
59.9
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAGAAGTTCTTCCATGCCA
59.63
CAGGAGCGTCAGGATTCCAG
60.18
142
PCR template sequence:
GAACCTCCTTCAGATGACAGAGAAGTTCTTCCATGCCATCATCAGCTCTTCCTCAGAATTCCCCTCACAGCTTCGAAGTGTCTGCCATTGTTTGTACCAGGCTTTGCTGGTCCTTCATCAGTTAGATAGCATTGATCTCTGGAATCCTGACGCTCCTGTAGAGACATTCTGGGAAATCAGCTCACAAATGCTTTTTTACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
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-495-3p(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), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGTTTGTACCAGGCTTTGCTGGTCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNF1_2475_ORF_1
0.9033
0.119172569
1
4863
ORF sequence:
ATGCTTTTTTACATCTGCAAGAAATTAACTAGCCATCAAATGCTTAGTAGCACAGAAATTCTCAAGTGGTTACGGGAAATTCTGATCTGCAGAAATAAATTTCTTCTTAAAAATAAGCAGGCAGATAGAAGCTCCTGTCATTCTCTCTACCTTTATGGAGTAGGATGTGAAATGTCTGCTACTGGAAATACCACTCAGATGTCAGTTGATCATGATGAGTTCCTGCGTGCCTGTACTCCTGGAGCATCTCTGCGGAAAGGAAGAGGGAATTCCTCCATGGATAGCACAGCAGGGTGCAGTGGAACCCCACCTATATGCCGACAAGCCCAGACCAAGCTAGAAGTGGCCTTATACATGTTTCTGTGGAATCCTGACACTGAAGCTGTTCTGGTTGCTATGTCCTGTTTCCGCCACCTCTGTGAAGAAGCAGATATTCGATGTGGGGTAGATGAAGTGTCAGTACACAACTTCTTGCCCAACTATAACACATTCATGGAATTTGCCTCAGTCAGCAATATGATGTCAACAGGAAGAGCAGCGCTTCAGAAAAGAGTGATGGCCCTGCTAAGGCGCATTGAGCACCCTACTGCAGGAAACATTGAGGCCTGGGAAGATACACATGCAAAGTGGGAACAGGCTACAAAACTAATCCTTAACTACCCAAAAGCCAAAATGGAAGATGGCCAGGCTGCAGAAAGTCTTCATAAGACCATTGTTAAGAGACGGATGTCCCATGTCAGTGGAGGAGGCTCCATAGACTTGTCTGACACAGACTCCCTGCAGGAGTGGATCAACATGACTGGCTTCCTTTGTGCCCTTGGTGGGGTGTGCCTGCAACAGAGAAGCAGCTCTGGCCTAGCGACATACAGCCCACCTATGGGCGCTGTCAGTGAACGCAAAGGGTCTATGATTTCTGTAATGTCTTCTGAAGGGAATATTGATTCACCTGTCAGCAGATTTATGGACCGGCTTCTGTCCTTAATGGTGTGTAACCACGAGAAAGTGGGGCTTCAGATACGGACCAATGTTAAGGACCTGGTGGGTCTGGAGTTGAGTCCTGCTCTGTATCCAATGCTGTTTAACAAACTGAAGAATACCATCAGCAAGTTTTTTGACTCTCAAGGACAGGTATTACTAAGTGACAGCAATACTCAGTTTGTAGAGCAAACCATAGCCATAATGAAAAACCTACTGGATAATCATACTGAAGGCAGCTCTGAGCATCTGGGACAAGCGAGCATTGAGACAATGATGCTAAATCTGGTCAGATACGTTCGTGTTCTTGGGAATATGGTCCATGCAATACAAATAAAAACAAAATTGTGTCAGTTAGTTGAAGTCATGATGGCAAGAAGAGATGACCTCTCGTTTTGTCAAGAGATGAAATTTAGGAATAAGATGGTAGAATATCTAACAGACTGGGTTATGGGAACATCAAACCAAGCAGCAGATGATGACATAAAATGTCTTACGAGAGATCTGGACCAAGCAAGCATGGAAGCAGTAGTTTCTCTCCTCGCTGGTCTTCCACTGCAGCCCGAAGAAGGAGATGGGGTGGAGCTGATGGAGGCCAAATCACAGTTATTCCTTAAGTACTTCACATTATTTATGAACCTTTTGAATGACTGTAGTGAAGTTGAAGATGAAAATGCACAAACGGGTGGCAGGAAACGTGGCATGTCTCGGAGGCTGGCATCCCTGAGGCACTGTACAGTGCTTGCAATGTCAAACTTACTCAATGCTAATGTGGACAGTGGACTCATGCACTCCATAGGCTTAGGTTATCACAAGGATCTTCAGACAAGAGCTACGTTTATGGAAGTTCTGACAAAAATCCTTCAACAAGGAACAGAATTCGATACACTTGCGGAAACGGTGTTGGCAGATCGATTTGAGAGACTTGTGGAACTGGTCACAATGATGGGAGACCAGGGAGAACTCCCTATAGCTATGGCTCTTGCCAATGTGGTCCCTTGTTCTCAGTGGGATGAGCTGGCTCGGGTTCTGGTCACTCTGTTTGATTCCCGGCATTTACTCTACCAGCTGCTCTGGAACATGTTTTCTAAGGAGGTAGAATTGGCAGACTCCATGCAGACTCTCTTTCGAGGCAACAGCTTGGCCAGTAAGATAATGACATTCTGCTTCAAGGTGTATGGTGCTACTTACCTACAAAAGCTCTTGGACCCTTTATTACGAGTCATCATCACATCTTCGGATTGGCAACATGTTAGCTTTGAAGTGGATCCTACCAGGTTAGAACCCTCTGAGAGCCTTGAGGAGAACCAGAGGAACCTCCTTCAGATGACAGAGAAGTTCTTCCATGCCATCATCAGCTCTTCCTCAGAATTCCCCTCACAGCTTCGAAGTGTCTGCCATTGTTTGTACCAGGCTTTGCTGGTCCTTCATCAGTTAGATAGCATTGATCTCTGGAATCCTGACGCTCCTGTAGAGACATTCTGGGAAATCAGCTCACAAATGCTTTTTTACATCTGCAAGAAATTAACTAGCCATCAAATGCTTAGTAGCACAGAAATTCTCAAGTGGTTACGGGAAATTCTGATCTGCAGAAATAAATTTCTTCTTAAAAATAAGCAGGCAGATAGAAGCTCCTGTCATTCTCTCTACCTTTATGGAGTAGGATGTGAAATGTCTGCTACTGGAAATACCACTCAGATGTCAGTTGATCATGATGAGTTCCTGCGTGCCTGTACTCCTGGAGCATCTCTGCGGAAAGGAAGAGGGAATTCCTCCATGGATAGCACAGCAGGGTGCAGTGGAACCCCACCTATATGCCGACAAGCCCAGACCAAGCTAGAAGTGGCCTTATACATGTTTCTGTGGAATCCTGACACTGAAGCTGTTCTGGTTGCTATGTCCTGTTTCCGCCACCTCTGTGAAGAAGCAGATATTCGATGTGGGGTAGATGAAGTGTCAGTACACAACTTCTTGCCCAACTATAACACATTCATGGAATTTGCCTCAGTCAGCAATATGATGTCAACAGGAAGAGCAGCGCTTCAGAAAAGAGTGATGGCCCTGCTAAGGCGCATTGAGCACCCTACTGCAGGAAACATTGAGGCCTGGGAAGATACACATGCAAAGTGGGAACAGGCTACAAAACTAATCCTTAACTACCCAAAAGCCAAAATGGAAGATGGCCAGGCTGCAGAAAGTCTTCATAAGACCATTGTTAAGAGACGGATGTCCCATGTCAGTGGAGGAGGCTCCATAGACTTGTCTGACACAGACTCCCTGCAGGAGTGGATCAACATGACTGGCTTCCTTTGTGCCCTTGGTGGGGTGTGCCTGCAACAGAGAAGCAGCTCTGGCCTAGCGACATACAGCCCACCTATGGGCGCTGTCAGTGAACGCAAAGGGTCTATGATTTCTGTAATGTCTTCTGAAGGGAATATTGATTCACCTGTCAGCAGATTTATGGACCGGCTTCTGTCCTTAATGGTGTGTAACCACGAGAAAGTGGGGCTTCAGATACGGACCAATGTTAAGGACCTGGTGGGTCTGGAGTTGAGTCCTGCTCTGTATCCAATGCTGTTTAACAAACTGAAGAATACCATCAGCAAGTTTTTTGACTCTCAAGGACAGGTATTACTAAGTGACAGCAATACTCAGTTTGTAGAGCAAACCATAGCCATAATGAAAAACCTACTGGATAATCATACTGAAGGCAGCTCTGAGCATCTGGGACAAGCGAGCATTGAGACAATGATGCTAAATCTGGTCAGATACGTTCGTGTTCTTGGGAATATGGTCCATGCAATACAAATAAAAACAAAATTGTGTCAGTTAGTTGAAGTCATGATGGCAAGAAGAGATGACCTCTCGTTTTGTCAAGAGATGAAATTTAGGAATAAGATGGTAGAATATCTAACAGACTGGGTTATGGGAACATCAAACCAAGCAGCAGATGATGACATAAAATGTCTTACGAGAGATCTGGACCAAGCAAGCATGGAAGCAGTAGTTTCTCTCCTCGCTGGTCTTCCACTGCAGCCCGAAGAAGGAGATGGGGTGGAGCTGATGGAGGCCAAATCACAGTTATTCCTTAAGTACTTCACATTATTTATGAACCTTTTGAATGACTGTAGTGAAGTTGAAGATGAAAATGCACAAACGGGTGGCAGGAAACGTGGCATGTCTCGGAGGCTGGCATCCCTGAGGCACTGTACAGTGCTTGCAATGTCAAACTTACTCAATGCTAATGTGGACAGTGGACTCATGCACTCCATAGGCTTAGGTTATCACAAGGATCTTCAGACAAGAGCTACGTTTATGGAAGTTCTGACAAAAATCCTTCAACAAGGAACAGAATTCGATACACTTGCGGAAACGGTGTTGGCAGATCGATTTGAGAGACTTGTGGAACTGGTCACAATGATGGGAGACCAGGGAGAACTCCCTATAGCTATGGCTCTTGCCAATGTGGTCCCTTGTTCTCAGTGGGATGAGCTGGCTCGGGTTCTGGTCACTCTGTTTGATTCCCGGCATTTACTCTACCAGCTGCTCTGGAACATGTTTTCTAAGGAGGTAGAATTGGCAGACTCCATGCAGACTCTCTTTCGAGGCAACAGCTTGGCCAGTAAGATAATGACATTCTGCTTCAAGGTGTATGGTGCTACTTACCTACAAAAGCTCTTGGACCCTTTATTACGAGTCATCATCACATCTTCGGATTGGCAACATGTTAGCTTTGAAGTGGATCCTACCAGGTTAGAACCCTCTGAGAGCCTTGAGGAGAACCAGAGGAACCTCCTTCAGATGACAGAGAAGTTCTTCCATGCCATCATCAGCTCTTCCTCAGAATTCCCCTCACAGCTTCGAAGTGTCTGCCATTGTTTGTACCAG
Peptide sequence:
MLFYICKKLTSHQMLSSTEILKWLREILICRNKFLLKNKQADRSSCHSLYLYGVGCEMSATGNTTQMSVDHDEFLRACTPGASLRKGRGNSSMDSTAGCSGTPPICRQAQTKLEVALYMFLWNPDTEAVLVAMSCFRHLCEEADIRCGVDEVSVHNFLPNYNTFMEFASVSNMMSTGRAALQKRVMALLRRIEHPTAGNIEAWEDTHAKWEQATKLILNYPKAKMEDGQAAESLHKTIVKRRMSHVSGGGSIDLSDTDSLQEWINMTGFLCALGGVCLQQRSSSGLATYSPPMGAVSERKGSMISVMSSEGNIDSPVSRFMDRLLSLMVCNHEKVGLQIRTNVKDLVGLELSPALYPMLFNKLKNTISKFFDSQGQVLLSDSNTQFVEQTIAIMKNLLDNHTEGSSEHLGQASIETMMLNLVRYVRVLGNMVHAIQIKTKLCQLVEVMMARRDDLSFCQEMKFRNKMVEYLTDWVMGTSNQAADDDIKCLTRDLDQASMEAVVSLLAGLPLQPEEGDGVELMEAKSQLFLKYFTLFMNLLNDCSEVEDENAQTGGRKRGMSRRLASLRHCTVLAMSNLLNANVDSGLMHSIGLGYHKDLQTRATFMEVLTKILQQGTEFDTLAETVLADRFERLVELVTMMGDQGELPIAMALANVVPCSQWDELARVLVTLFDSRHLLYQLLWNMFSKEVELADSMQTLFRGNSLASKIMTFCFKVYGATYLQKLLDPLLRVIITSSDWQHVSFEVDPTRLEPSESLEENQRNLLQMTEKFFHAIISSSSEFPSQLRSVCHCLYQALLVLHQLDSIDLWNPDAPVETFWEISSQMLFYICKKLTSHQMLSSTEILKWLREILICRNKFLLKNKQADRSSCHSLYLYGVGCEMSATGNTTQMSVDHDEFLRACTPGASLRKGRGNSSMDSTAGCSGTPPICRQAQTKLEVALYMFLWNPDTEAVLVAMSCFRHLCEEADIRCGVDEVSVHNFLPNYNTFMEFASVSNMMSTGRAALQKRVMALLRRIEHPTAGNIEAWEDTHAKWEQATKLILNYPKAKMEDGQAAESLHKTIVKRRMSHVSGGGSIDLSDTDSLQEWINMTGFLCALGGVCLQQRSSSGLATYSPPMGAVSERKGSMISVMSSEGNIDSPVSRFMDRLLSLMVCNHEKVGLQIRTNVKDLVGLELSPALYPMLFNKLKNTISKFFDSQGQVLLSDSNTQFVEQTIAIMKNLLDNHTEGSSEHLGQASIETMMLNLVRYVRVLGNMVHAIQIKTKLCQLVEVMMARRDDLSFCQEMKFRNKMVEYLTDWVMGTSNQAADDDIKCLTRDLDQASMEAVVSLLAGLPLQPEEGDGVELMEAKSQLFLKYFTLFMNLLNDCSEVEDENAQTGGRKRGMSRRLASLRHCTVLAMSNLLNANVDSGLMHSIGLGYHKDLQTRATFMEVLTKILQQGTEFDTLAETVLADRFERLVELVTMMGDQGELPIAMALANVVPCSQWDELARVLVTLFDSRHLLYQLLWNMFSKEVELADSMQTLFRGNSLASKIMTFCFKVYGATYLQKLLDPLLRVIITSSDWQHVSFEVDPTRLEPSESLEENQRNLLQMTEKFFHAIISSSSEFPSQLRSVCHCLYQ
IRESfinder result
IRESfinder score
0.531012075
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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