top of page
mmu_circDnaaf9_328
Basic information of circular RNA
PanCircBase ID:
mmu_circDnaaf9_328
mm39_Chr. Position ID:
chr2|130606372|130612709|-
Gene name:
Dnaaf9
Transcript:
ENSMUST00000044766.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
20,19,18,17
Exon/intron offsets:
0,1235,3157,6219
Genomic length:
6337
Exon/intron sizes in nt:
88,51,71,118
Flanking exon/introns:
chr2:130590708-130606372|chr2:130612709-130616978
Splice length:
328
Other database IDs:
circBase: mmu_circ_0009341, CIRCpedia: MMU_CIRCpedia_7599, circAtlas: mmu-4930402H24Rik_0002
circBase: hsa_circ_0114967, circAtlas: hsa-C20orf194_0004, CIRCpedia: HSA_CIRCpedia_95342
Human Ortholog IDs:
Mature spliced Sequence:
GCTCGTATGACCGTCTATGACATTCCTGACCTGCTGGGAGGAGGAGGAGGAGGATGCTTAGGGTCTGTGGTCTTCTCAGAGTCGTTTTTGACATCTCGGATCTTGGTTAAAGAAAAAGATGGCACTATTACCCCAGAGACCAGCTACATCATCCTGACAGCTGCCATCCCCAGATTCTGTTCCTGGCTGGTAGAAGATAGTGAAATAAAATTGTCTGAGAAAACCCTGCAAGCAACAAAGGGGGACGACTGTTGCTTGGGCACTTTGCTAACAGGAGGAAAGGGAGCGTATCTTTATTCCAACAGTCCACAGTCCGGGCCTGAGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAAGGGGGACGACTGTTG
60.18
CATCCTCCTCCTCCTCCTCC
60.18
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAACAAAGGGGGACGACTGT
60.18
CATCCTCCTCCTCCTCCTCC
60.18
152
PCR template sequence:
CAAGCAACAAAGGGGGACGACTGTTGCTTGGGCACTTTGCTAACAGGAGGAAAGGGAGCGTATCTTTATTCCAACAGTCCACAGTCCGGGCCTGAGGAAGGCTCGTATGACCGTCTATGACATTCCTGACCTGCTGGGAGGAGGAGGAGGAGGATGCTTAGGGTCTGTGGTCTTCTCAGAGTCGTTTTTGACATCTCGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-1a-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-106b-5p(1), mmu-miR-132-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GGGCCTGAGGAAGGCTCGTATGACCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAAF9_328_ORF_1
0.6683
0.145715992
0.278497289
342
ORF sequence:
ATGACCGTCTATGACATTCCTGACCTGCTGGGAGGAGGAGGAGGAGGATGCTTAGGGTCTGTGGTCTTCTCAGAGTCGTTTTTGACATCTCGGATCTTGGTTAAAGAAAAAGATGGCACTATTACCCCAGAGACCAGCTACATCATCCTGACAGCTGCCATCCCCAGATTCTGTTCCTGGCTGGTAGAAGATAGTGAAATAAAATTGTCTGAGAAAACCCTGCAAGCAACAAAGGGGGACGACTGTTGCTTGGGCACTTTGCTAACAGGAGGAAAGGGAGCGTATCTTTATTCCAACAGTCCACAGTCCGGGCCTGAGGAAGGCTCGTATGACCGTCTATGA
Peptide sequence:
MTVYDIPDLLGGGGGGCLGSVVFSESFLTSRILVKEKDGTITPETSYIILTAAIPRFCSWLVEDSEIKLSEKTLQATKGDDCCLGTLLTGGKGAYLYSNSPQSGPEEGSYDRL
IRESfinder result
IRESfinder score
0.541618765
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page