top of page
mmu_circAgfg1_252
Basic information of circular RNA
PanCircBase ID:
mmu_circAgfg1_252
mm39_Chr. Position ID:
chr1|82864095|82871303|+
Gene name:
Agfg1
Transcript:
ENSMUST00000189220.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
10,11
Exon/intron offsets:
0,7049
Genomic length:
7208
Exon/intron sizes in nt:
93,159
Flanking exon/introns:
chr1:82863908-82864095|chr1:82871303-82872202
Splice length:
252
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTACGCCTTCTACGAATCCATTTGTTGCTGCTACTGGTCCTTCTGCGGCATCGTCTACAAACCCATTTCAGACCAATGCCAGAGGAGCAACAGCGGCAACCTTTGGCACCGCATCTATGAGTATGCCAGCAGGATTTGGCACTCCTGCCCAGTATAGTCTCCCTACCAGCTTTAGTGGCAGTTTCCAGCAGCCTGCCTTCCCAGCCCAAGCAGCTTTCCCTCAGCAGACAGCCTTTTCTCAACAGCCCAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTACCAGCTTTAGTGGCA
59.38
TGTAGACGATGCCGCAGAAG
60.18
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAGTGGCAGTTTCCAGCAGC
60.61
TTGTAGACGATGCCGCAGAA
59.75
140
PCR template sequence:
TATAGTCTCCCTACCAGCTTTAGTGGCAGTTTCCAGCAGCCTGCCTTCCCAGCCCAAGCAGCTTTCCCTCAGCAGACAGCCTTTTCTCAACAGCCCAATGCTACGCCTTCTACGAATCCATTTGTTGCTGCTACTGGTCCTTCTGCGGCATCGTCTACAAACCCATTTCAGACCAATGCCAGAGGAGCAACAGCGGCAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-320-3p(2), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-370-3p(1), mmu-miR-802-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAACAGCCCAATGCTACGCCTTCTAC
siRNA sets
TAGAAGGCGTAGCATTGGG, AGAAGGCGTAGCATTGGGC, GTAGAAGGCGTAGCATTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGFG1_252_ORF_1
1.1181
0.10669336
0.513327381
387
ORF sequence:
ATGAGTATGCCAGCAGGATTTGGCACTCCTGCCCAGTATAGTCTCCCTACCAGCTTTAGTGGCAGTTTCCAGCAGCCTGCCTTCCCAGCCCAAGCAGCTTTCCCTCAGCAGACAGCCTTTTCTCAACAGCCCAATGCTACGCCTTCTACGAATCCATTTGTTGCTGCTACTGGTCCTTCTGCGGCATCGTCTACAAACCCATTTCAGACCAATGCCAGAGGAGCAACAGCGGCAACCTTTGGCACCGCATCTATGAGTATGCCAGCAGGATTTGGCACTCCTGCCCAGTATAGTCTCCCTACCAGCTTTAGTGGCAGTTTCCAGCAGCCTGCCTTCCCAGCCCAAGCAGCTTTCCCTCAGCAGACAGCCTTTTCTCAACAGCCCAAT
Peptide sequence:
MSMPAGFGTPAQYSLPTSFSGSFQQPAFPAQAAFPQQTAFSQQPNATPSTNPFVAATGPSAASSTNPFQTNARGATAATFGTASMSMPAGFGTPAQYSLPTSFSGSFQQPAFPAQAAFPQQTAFSQQPN
IRESfinder result
IRESfinder score
0.539518159
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page