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mmu_ciUba6_1107
Basic information of circular RNA
PanCircBase ID:
mmu_ciUba6_1107
mm39_Chr. Position ID:
chr5|86267279|86268386|-
Gene name:
Uba6
Transcript:
ENSMUST00000039373.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
30
Exon/intron offsets:
0
Genomic length:
1107
Exon/intron sizes in nt:
1107
Flanking exon/introns:
chr5:86267279-86268386
Splice length:
1107
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTATGAAAGTTTGTTTTGCTGAAATAACAAGAAAGAAAGAAAGTATTCTGCCTTTAAAAAGGAAACATACTGGGTTTCATCTCTATTTCTTCTTGTCTTTGCTAATCCTTCCTACTATTTCAGGACCCAGCCAAACCTCATGTTGATAAATTATCTCCAAGTAGACTAGCCAAAGAATTCTCAGAGCAGTTGATTTGCCACACCACTTAGCATTATACTTGGTTCCTAACTTAGATAATTTTAAAACCATTCTTGTCTGGTTATAGTCCTGTCTAACTGTGAAACTTACAATGTAATCCTATACATTTATTACAACAGAAAACAATTCCTTGAGGTTTTGTTTTTGACATTTCAGGTTGAACACAGCCAGAAATGCCAGTAGAAGAATCTTATCAGGAAGAGCTAATCCATATTATGCTCATACATTACTTACAAGAACAGAAAATACTGTTATCCATTCAAAGTAAAGTGAGGTGCTATGTTTCTGACTTTTACATAACATTCGCACACATGCCAAGTCACATATAAGCCAAGATAATCATTGTAGCATGTTTATGACATGCAGTGATTTGAGTAATTAGATTGTTCAATTATCAATGGCTAGAAATCTGCACTTTGAAACCCCTACAACTACTTAAAAAGAAAGGGATACATGCATGTACATACATAAACATAGACACACACAGAGAGAAAGAAACACCATATAGCATAGCTATATACCTATATAGTGTGTAAGACATGAAAACAAAACGATTGTATGAATGGAAGGAGGGGATCAGAAGGAAACGAAGGAGAGTCAGAGACATTAGTAAAAAAGCAATGGTATATGTGCATGAAACTGTACTAAACTCATTACTTTGTGTGAACTAAAGAAGTATTGAAGAGAAAATGAGGGTACTTTGTAATACATACTTGAAATGAGTCACTGCAAAAAATATACTAAACACAGATAAAAGTGGTTACCTATATATATTGACTATTTTAGAAATTGTAAACCCCACCACCATAGCATTAATTTCTAAATAATAAATTATGGACTGCAGGAAATGTATTACTACTAATGGAAATTTTAATATTTGTGTTTTTTATATACTCTGCAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGACTGCAGGAAATGTATTACT
57.56
AGAGATGAAACCCAGTATGTTTCCT
59.75
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGACTGCAGGAAATGTATTACT
57.56
GAGATGAAACCCAGTATGTTTCCT
58.5
157
PCR template sequence:
CCATAGCATTAATTTCTAAATAATAAATTATGGACTGCAGGAAATGTATTACTACTAATGGAAATTTTAATATTTGTGTTTTTTATATACTCTGCAACAGGTATGTATGAAAGTTTGTTTTGCTGAAATAACAAGAAAGAAAGAAAGTATTCTGCCTTTAAAAAGGAAACATACTGGGTTTCATCTCTATTTCTTCTTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-1187(3), mmu-miR-155-5p(2), mmu-miR-466a-5p(2), mmu-miR-466p-5p(2), mmu-miR-9-5p(1), mmu-miR-33-5p(1), mmu-miR-30c-5p(1), mmu-miR-217-5p(1), mmu-miR-203-3p(1), mmu-miR-143-3p(1), mmu-miR-30b-5p(1), mmu-miR-494-3p(1), mmu-miR-297a-5p(1), mmu-miR-377-3p(1), mmu-miR-129-5p(1), mmu-miR-335-3p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TACTCTGCAACAGGTATGTATGAAAG
siRNA sets
TTCATACATACCTGTTGCA, TCATACATACCTGTTGCAG, ATACATACCTGTTGCAGAG
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
0.815257695
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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