top of page
mmu_circNf1_1020
Basic information of circular RNA
PanCircBase ID:
mmu_circNf1_1020
mm39_Chr. Position ID:
chr11|79335425|79344790|+
Gene name:
Nf1
Transcript:
ENSMUST00000219057.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
23,24,25,26,27,28,29
Exon/intron offsets:
0,424,1116,2206,2884,3525,9203
Genomic length:
9365
Exon/intron sizes in nt:
1,40,12,38,41,17,18,22,00,000
Flanking exon/introns:
chr11:79335035-79335425|chr11:79344790-79344924
Splice length:
1020
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATTACTAAGTGACAGCAATACTCAGTTTGTAGAGCAAACCATAGCCATAATGAAAAACCTACTGGATAATCATACTGAAGGCAGCTCTGAGCATCTGGGACAAGCGAGCATTGAGACAATGATGCTAAATCTGGTCAGATACGTTCGTGTTCTTGGGAATATGGTCCATGCAATACAAATAAAAACAAAATTGTGTCAGTTAGTTGAAGTCATGATGGCAAGAAGAGATGACCTCTCGTTTTGTCAAGAGATGAAATTTAGGAATAAGATGGTAGAATATCTAACAGACTGGGTTATGGGAACATCAAACCAAGCAGCAGATGATGACATAAAATGTCTTACGAGAGATCTGGACCAAGCAAGCATGGAAGCAGTAGTTTCTCTCCTCGCTGGTCTTCCACTGCAGCCCGAAGAAGGAGATGGGGTGGAGCTGATGGAGGCCAAATCACAGTTATTCCTTAAGTACTTCACATTATTTATGAACCTTTTGAATGACTGTAGTGAAGTTGAAGATGAAAATGCACAAACGGGTGGCAGGAAACGTGGCATGTCTCGGAGGCTGGCATCCCTGAGGCACTGTACAGTGCTTGCAATGTCAAACTTACTCAATGCTAATGTGGACAGTGGACTCATGCACTCCATAGGCTTAGGTTATCACAAGGATCTTCAGACAAGAGCTACGTTTATGGAAGTTCTGACAAAAATCCTTCAACAAGGAACAGAATTCGATACACTTGCGGAAACGGTGTTGGCAGATCGATTTGAGAGACTTGTGGAACTGGTCACAATGATGGGAGACCAGGGAGAACTCCCTATAGCTATGGCTCTTGCCAATGTGGTCCCTTGTTCTCAGTGGGATGAGCTGGCTCGGGTTCTGGTCACTCTGTTTGATTCCCGGCATTTACTCTACCAGCTGCTCTGGAACATGTTTTCTAAGGAGGTAGAATTGGCAGACTCCATGCAGACTCTCTTTCGAGGCAACAGCTTGGCCAGTAAGATAATGACATTCTGCTTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTTCGAGGCAACAGCTTGG
59.76
ATGCTCAGAGCTGCCTTCAG
60.11
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTTCGAGGCAACAGCTTGG
59.76
CAGATGCTCAGAGCTGCCTT
60.11
148
PCR template sequence:
CTGGAACATGTTTTCTAAGGAGGTAGAATTGGCAGACTCCATGCAGACTCTCTTTCGAGGCAACAGCTTGGCCAGTAAGATAATGACATTCTGCTTCAAGGTATTACTAAGTGACAGCAATACTCAGTTTGTAGAGCAAACCATAGCCATAATGAAAAACCTACTGGATAATCATACTGAAGGCAGCTCTGAGCATCTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1), mmu-miR-31-5p(1), mmu-miR-335-5p(1), mmu-miR-7a-5p(1), mmu-miR-185-5p(1), mmu-miR-758-3p(1), mmu-miR-362-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTCTGCTTCAAGGTATTACTAAGTG
siRNA sets
TAGTAATACCTTGAAGCAG, TTAGTAATACCTTGAAGCA, AGTAATACCTTGAAGCAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNF1_1020_ORF_1
1.0034
0.108037359
0.999988466
1989
ORF sequence:
ATGAAAAACCTACTGGATAATCATACTGAAGGCAGCTCTGAGCATCTGGGACAAGCGAGCATTGAGACAATGATGCTAAATCTGGTCAGATACGTTCGTGTTCTTGGGAATATGGTCCATGCAATACAAATAAAAACAAAATTGTGTCAGTTAGTTGAAGTCATGATGGCAAGAAGAGATGACCTCTCGTTTTGTCAAGAGATGAAATTTAGGAATAAGATGGTAGAATATCTAACAGACTGGGTTATGGGAACATCAAACCAAGCAGCAGATGATGACATAAAATGTCTTACGAGAGATCTGGACCAAGCAAGCATGGAAGCAGTAGTTTCTCTCCTCGCTGGTCTTCCACTGCAGCCCGAAGAAGGAGATGGGGTGGAGCTGATGGAGGCCAAATCACAGTTATTCCTTAAGTACTTCACATTATTTATGAACCTTTTGAATGACTGTAGTGAAGTTGAAGATGAAAATGCACAAACGGGTGGCAGGAAACGTGGCATGTCTCGGAGGCTGGCATCCCTGAGGCACTGTACAGTGCTTGCAATGTCAAACTTACTCAATGCTAATGTGGACAGTGGACTCATGCACTCCATAGGCTTAGGTTATCACAAGGATCTTCAGACAAGAGCTACGTTTATGGAAGTTCTGACAAAAATCCTTCAACAAGGAACAGAATTCGATACACTTGCGGAAACGGTGTTGGCAGATCGATTTGAGAGACTTGTGGAACTGGTCACAATGATGGGAGACCAGGGAGAACTCCCTATAGCTATGGCTCTTGCCAATGTGGTCCCTTGTTCTCAGTGGGATGAGCTGGCTCGGGTTCTGGTCACTCTGTTTGATTCCCGGCATTTACTCTACCAGCTGCTCTGGAACATGTTTTCTAAGGAGGTAGAATTGGCAGACTCCATGCAGACTCTCTTTCGAGGCAACAGCTTGGCCAGTAAGATAATGACATTCTGCTTCAAGGTATTACTAAGTGACAGCAATACTCAGTTTGTAGAGCAAACCATAGCCATAATGAAAAACCTACTGGATAATCATACTGAAGGCAGCTCTGAGCATCTGGGACAAGCGAGCATTGAGACAATGATGCTAAATCTGGTCAGATACGTTCGTGTTCTTGGGAATATGGTCCATGCAATACAAATAAAAACAAAATTGTGTCAGTTAGTTGAAGTCATGATGGCAAGAAGAGATGACCTCTCGTTTTGTCAAGAGATGAAATTTAGGAATAAGATGGTAGAATATCTAACAGACTGGGTTATGGGAACATCAAACCAAGCAGCAGATGATGACATAAAATGTCTTACGAGAGATCTGGACCAAGCAAGCATGGAAGCAGTAGTTTCTCTCCTCGCTGGTCTTCCACTGCAGCCCGAAGAAGGAGATGGGGTGGAGCTGATGGAGGCCAAATCACAGTTATTCCTTAAGTACTTCACATTATTTATGAACCTTTTGAATGACTGTAGTGAAGTTGAAGATGAAAATGCACAAACGGGTGGCAGGAAACGTGGCATGTCTCGGAGGCTGGCATCCCTGAGGCACTGTACAGTGCTTGCAATGTCAAACTTACTCAATGCTAATGTGGACAGTGGACTCATGCACTCCATAGGCTTAGGTTATCACAAGGATCTTCAGACAAGAGCTACGTTTATGGAAGTTCTGACAAAAATCCTTCAACAAGGAACAGAATTCGATACACTTGCGGAAACGGTGTTGGCAGATCGATTTGAGAGACTTGTGGAACTGGTCACAATGATGGGAGACCAGGGAGAACTCCCTATAGCTATGGCTCTTGCCAATGTGGTCCCTTGTTCTCAGTGGGATGAGCTGGCTCGGGTTCTGGTCACTCTGTTTGATTCCCGGCATTTACTCTACCAGCTGCTCTGGAACATGTTTTCTAAGGAGGTAGAATTGGCAGACTCCATGCAGACTCTCTTTCGAGGCAACAGCTTGGCCAGTAAGATAATGACATTCTGCTTCAAG
Peptide sequence:
MKNLLDNHTEGSSEHLGQASIETMMLNLVRYVRVLGNMVHAIQIKTKLCQLVEVMMARRDDLSFCQEMKFRNKMVEYLTDWVMGTSNQAADDDIKCLTRDLDQASMEAVVSLLAGLPLQPEEGDGVELMEAKSQLFLKYFTLFMNLLNDCSEVEDENAQTGGRKRGMSRRLASLRHCTVLAMSNLLNANVDSGLMHSIGLGYHKDLQTRATFMEVLTKILQQGTEFDTLAETVLADRFERLVELVTMMGDQGELPIAMALANVVPCSQWDELARVLVTLFDSRHLLYQLLWNMFSKEVELADSMQTLFRGNSLASKIMTFCFKVLLSDSNTQFVEQTIAIMKNLLDNHTEGSSEHLGQASIETMMLNLVRYVRVLGNMVHAIQIKTKLCQLVEVMMARRDDLSFCQEMKFRNKMVEYLTDWVMGTSNQAADDDIKCLTRDLDQASMEAVVSLLAGLPLQPEEGDGVELMEAKSQLFLKYFTLFMNLLNDCSEVEDENAQTGGRKRGMSRRLASLRHCTVLAMSNLLNANVDSGLMHSIGLGYHKDLQTRATFMEVLTKILQQGTEFDTLAETVLADRFERLVELVTMMGDQGELPIAMALANVVPCSQWDELARVLVTLFDSRHLLYQLLWNMFSKEVELADSMQTLFRGNSLASKIMTFCFK
IRESfinder result
IRESfinder score
0.47912162
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page