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mmu_ciUbe2f_1037
Basic information of circular RNA
PanCircBase ID:
mmu_ciUbe2f_1037
mm39_Chr. Position ID:
chr1|91203039|91204076|+
Gene name:
Ube2f
Transcript:
ENSMUST00000059743.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
1037
Exon/intron sizes in nt:
1037
Flanking exon/introns:
chr1:91203039-91204107
Splice length:
1037
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTAGCCTGTAAACCTCCCCATCTGCTCACACACACACACACACACACACGTCTACACACCAGGGGCAAGGCATAGAGAGAGACATGGGGGCACTGCCTTGGGAGCCATGCTTCCCATGCAAACCCATGTTTGTCTTGTGGCCTTGGCAGCAGTATGGGAATTTCAGTACAGAAACTCATTTGTCTGATAGGTGCTTATCATGCAGAGCCTGTGTATTTTATGTAAGTTTTTTTAAATGGTGAATCATGTTTTTAAGACTGATTTTATTTATAATACCGAAATTCCAGGGACCAATGATTTTAGAATTTTAGGTAATAATCTATACCTATATGTTAGTTCCTTAAAGACCATATACTAATTATACTAGAGGCTGTCACATGACTTTTGTTTTTGAGACTAGATCAGTAGGGAAATAAGGTGATATATAGAGAGTTGAAGTGATAAAAATGTTAAGTAGCTAGACAGATGGGTAAATAGGAAGTAGATTTATAGGGAGTCAGTAGAGAGGGGGCAAGCACCATCTTTGCAACATGGCAGAGCCATGAGCTCTGTTGGCATGAGCTGTGTGGAACTCTGGTCTAAATTGTGGAATGTAACTCCACCTCTGAAGAATCCAGCACCACACATGCACACAAATGTGCATATACATTCATGTGCACATACACATGTTAATAAATGAAAGAATAAAGTAAACTAACCCTGGTCTGGGAAACTGTTTAGCACTAGTGTCTGCAAACACATCTGACCAAGGGTTCTGTATGGAGCAGTAATGGTCAGCTGTGGATCTGTGATTTGGGCATAGCAATATGGACTCCAGGTTGGAGTTTCAGACTGGGAGGTGGTGTATGTGTCTGTCTGTCTGTCTGTCTGTCTATATTTATGTCTGTTGCAAATATTTATGTGTGTATACACTGCCACCTGCTATTCTGTTCTCTAGTTCCATAGGACAGACCATGTGCTTGGTGACTCACTGGGGGTGTAGAAAGACCACACATTGCTGATATGGACTAGGGAGCTTTGTGACTCCCTCCAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCTTGGTGACTCACTGG
60.18
TCTCTCTATGCCTTGCCCCT
60.03
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGCTTGGTGACTCACTGG
60.18
CTCTCTATGCCTTGCCCCTG
59.89
162
PCR template sequence:
CTAGTTCCATAGGACAGACCATGTGCTTGGTGACTCACTGGGGGTGTAGAAAGACCACACATTGCTGATATGGACTAGGGAGCTTTGTGACTCCCTCCACGTGAGTAGCCTGTAAACCTCCCCATCTGCTCACACACACACACACACACACACGTCTACACACCAGGGGCAAGGCATAGAGAGAGACATGGGGGCACTGC
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-1187(5), mmu-miR-297a-5p(2), mmu-miR-466a-5p(2), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-34b-5p(1), mmu-miR-466p-5p(1), mmu-miR-350-3p(1), mmu-miR-490-3p(1), mmu-miR-574-5p(1), mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGACTCCCTCCACGTGAGTAGCCTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.793159694
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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