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mmu_circAggf1_1040
Basic information of circular RNA
PanCircBase ID:
mmu_circAggf1_1040
mm39_Chr. Position ID:
chr13|95498976|95507467|-
Gene name:
Aggf1
Transcript:
ENSMUST00000022189.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,7,6,5,4,3
Exon/intron offsets:
0,368,2212,5911,6928,8288
Genomic length:
8491
Exon/intron sizes in nt:
52,11,23,22,18,91,62,200
Flanking exon/introns:
chr13:95495319-95498976|chr13:95507467-95508048
Splice length:
1040
Other database IDs:
circBase: hsa_circ_0073071
Human Ortholog IDs:
Mature spliced Sequence:
ATTATTACTATCAGACATGTTATAATGACGACAGTCTTCCCAGTAAAGAGACGGAGCTGTGTGTACAGCAGAGTCAGTGTGCTCAGGCTTCCGCTCTTGATCCTCAGGACGAGTCACACATAGACAGCGGGAGTTATGCTGGTGCTGATGCCACAGAAGGTGTTAGCCATAGACAGGAGGACGCCGTCACCTCTGACTCACAGGAGAGTGTGTCCGCGCTAGCAGAAGGCCCAGCACTCGAAGGGTCCTCGCTTGCTGAGAGCTTGAGAGCTGCAGCGGAGGCTGCTGTGTCGCAGACCGGCTTCACCTACGACGAGAGCACGGGCTTATATTTTGACCACAGCACTGGTTTCTATTATGATTCTGAAAACCAGCTGTATTATGACCCTTCCACGGGGATTTATTACTACTGCGATGTGGAGAGTGGTCGGTACCAGTTTCACTCTCGCGTAGACCTGCAGCCTTACCAGACCTCTAGCACAAAACCAAACAGAGAAAGAAGACTGAAGAAGAGAAGAAAGGAGCCAGGTTTTTATACAGCAAATGAAGAAAAGGATTTGAGCTCAGAAGATCAGAAAGTCTGCAGTGTAGAATATATAAACTGCAGTGAGGATGAACATTCTGGAAATGTGAAAAAGAAGGCCAGAACAGACACTTCTCACAAAAGCAGTCCCTTACAGCTCACGGTGGCAGTTAGTGGAGACACTGTGGAGTCTCCTGGAGATGATAACTCAGCGTCATCTAAGGATGAGAGAATCGGAGAGAGTGAGAGCGAGCCGGAAGAAGGTGAGATCACAGACTCTCAGAGTGAGAAGAGCTATGATGGAGACAGTAGCAGTGGGGACAGGGAGACCTCAGAAGAATCCGACGATGAAGATGAGGAAAGAATTTGGCCGCCCTGTATTCGCGTGATTGTCATTAGGTCTCCAGTGTTGCAGATGGGCTCGCTGTTCATCATCACCGCTGTGAGCCCAGCCACCATTGGGAGAGAGAAGGACATGGAGCATACTGTGAGAATCCCTGAAGTCGCTGTTAGTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCCACCATTGGGAGAGAG
60.11
TGAGCACACTGACTCTGCTG
59.97
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCCACCATTGGGAGAGAG
60.11
GAGCACACTGACTCTGCTGT
59.97
152
PCR template sequence:
GGGCTCGCTGTTCATCATCACCGCTGTGAGCCCAGCCACCATTGGGAGAGAGAAGGACATGGAGCATACTGTGAGAATCCCTGAAGTCGCTGTTAGTAAGATTATTACTATCAGACATGTTATAATGACGACAGTCTTCCCAGTAAAGAGACGGAGCTGTGTGTACAGCAGAGTCAGTGTGCTCAGGCTTCCGCTCTTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-200a-3p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-7b-5p(1), mmu-miR-29a-3p(1), mmu-miR-7a-5p(1), mmu-miR-23a-3p(1), mmu-miR-339-5p(1), mmu-miR-149-5p(1), mmu-miR-676-3p(1), mmu-miR-541-5p(1), mmu-miR-673-5p(1), mmu-miR-369-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CGCTGTTAGTAAGATTATTACTATCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGGF1_1040_ORF_1
1.0999
0.073842195
0.210700916
225
ORF sequence:
ATGGGCTCGCTGTTCATCATCACCGCTGTGAGCCCAGCCACCATTGGGAGAGAGAAGGACATGGAGCATACTGTGAGAATCCCTGAAGTCGCTGTTAGTAAGATTATTACTATCAGACATGTTATAATGACGACAGTCTTCCCAGTAAAGAGACGGAGCTGTGTGTACAGCAGAGTCAGTGTGCTCAGGCTTCCGCTCTTGATCCTCAGGACGAGTCACACATAG
Peptide sequence:
MGSLFIITAVSPATIGREKDMEHTVRIPEVAVSKIITIRHVIMTTVFPVKRRSCVYSRVSVLRLPLLILRTSHT
IRESfinder result
IRESfinder score
0.444728374
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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