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mmu_ciGart_825_1
Basic information of circular RNA
PanCircBase ID:
mmu_ciGart_825_1
mm39_Chr. Position ID:
chr16|91420389|91421214|-
Gene name:
Gart
Transcript:
ENSMUST00000023684.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
18
Exon/intron offsets:
0
Genomic length:
825
Exon/intron sizes in nt:
825
Flanking exon/introns:
chr16:91420389-91421214
Splice length:
825
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAGAAAGCACGGCTTTTCCTCAGCACCGCTCACACAGACCAGACAGGGTGGGGAGGGCCTTGGGTAGTAAGCATGCTCTAGCAGAGCCTCAGATGGGGTCAGGAAAGGGATGTGGGAAACATGTCTAAGAGAAAGAGAGAAAGGACAGCCTGGTGGCGCACGCCTTTAATCTCAGCACTTGGGAGGCAGAGGCAGGCAGATTCCTGAGTTCCGTGCCAGCCTGGTCTACAAAGTGAGTCCCAAGCCAAACAGGACTACACAGAGAGACCCTGCCTCCAGAAACCACCAGGAGAGGCTCCTCGGCAGTTGAGGGCACTTGCTGCTCTTGCAGAGGACATAGGTCGTATTCCCAGCACCCGCACAGTGCGTCACAGCCACCCCCACCTCCAGGGCATCTGAAGTGTGAGAATGATGGATGTTATTAACCTGGTATTCTAGCCTTTGAGAATACAATATAATATTCTAAAATTGTCTTTTATTAAAAGTAAGACCTCGGTAGGGAAACATTTGATTCTATTGGTCACCACAGTGACTTTGCTGTTGGCTTTCAGAATCGCCAAGTAACCCGGGCTGGTCTGGCCGCAGACTTCCTAGTGTGGGATTTAGTGGGTGGCCACCCCACCCAGCTCTGGTTTTTGCCACGAGTAGCACTGCCCTGAACAGTGTGTTGTTGGAGGCATCGTCTTTTAGACAATGGTCCAGTGCTGTGGCTGCCCTGCAGGGTGCTCTTACAGTTTCAACATCTTTCAAGCCCAAGGTCATGATAAAGCAAAGGACCGAGCTCTCAGAAGTGTCAGCTCACTTGCTTTCCTGCTTTTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCAAAGGACCGAGCTCTC
60.04
CCCATCTGAGGCTCTGCTAG
59.32
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGACCGAGCTCTCAGAAGT
59.96
CCCATCTGAGGCTCTGCTAG
59.32
150
PCR template sequence:
GTGCTCTTACAGTTTCAACATCTTTCAAGCCCAAGGTCATGATAAAGCAAAGGACCGAGCTCTCAGAAGTGTCAGCTCACTTGCTTTCCTGCTTTTTCAGGTAAAGAAAGCACGGCTTTTCCTCAGCACCGCTCACACAGACCAGACAGGGTGGGGAGGGCCTTGGGTAGTAAGCATGCTCTAGCAGAGCCTCAGATGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-204-5p(1), mmu-miR-335-5p(1), mmu-miR-328-3p(1), mmu-miR-125b-1-3p(1), mmu-miR-34b-5p(1), mmu-miR-224-5p(1), mmu-miR-690(1), mmu-miR-29b-2-5p(1), mmu-miR-673-5p(1), mmu-miR-188-3p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGCTTTTTCAGGTAAAGAAAGCAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIGART_825_1_ORF_1
0.6514
-0.078014878
0.054566969
213
ORF sequence:
ATGGTCCAGTGCTGTGGCTGCCCTGCAGGGTGCTCTTACAGTTTCAACATCTTTCAAGCCCAAGGTCATGATAAAGCAAAGGACCGAGCTCTCAGAAGTGTCAGCTCACTTGCTTTCCTGCTTTTTCAGGTAAAGAAAGCACGGCTTTTCCTCAGCACCGCTCACACAGACCAGACAGGGTGGGGAGGGCCTTGGGTAGTAAGCATGCTCTAG
Peptide sequence:
MVQCCGCPAGCSYSFNIFQAQGHDKAKDRALRSVSSLAFLLFQVKKARLFLSTAHTDQTGWGGPWVVSML
IRESfinder result
IRESfinder score
0.662511861
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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