top of page
mmu_ciXpo5_910
Basic information of circular RNA
PanCircBase ID:
mmu_ciXpo5_910
mm39_Chr. Position ID:
chr17|46546927|46547837|+
Gene name:
Xpo5
Transcript:
ENSMUST00000087031.7
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
23
Exon/intron offsets:
0
Genomic length:
910
Exon/intron sizes in nt:
910
Flanking exon/introns:
chr17:46546927-46547838
Splice length:
910
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATATCCTTGAAATGGCCCCGAATAACCCAGAAGGCCAGAAAACTAGAGACAGGAGTGAGAGGGGGGAGACCTAACCTGTGGGATGGTGGGCGTCAGTGCAGCAGGACCCCACTCCAGCAGAAAGGGTAAGATAGGGAGAACAGGAAGGGAGGGGGTTCTCTTACAAAGCCTCAGAGCTCCTCTCTGGAGAGAGTTATGATTGTCTTCCTACTTCTTAGAAATGTAAAGAAGGTGATTTCCTTATCTACAGTTTGTTTAGTGCTTCCTTTTGGTTGGTTTGTGTTTGCCAGGAACTCTCTATAGATAATCTAGGCTAGCCCTACACATGCTGCCCTCCTACCTTAACTTCCTAAATGCTGGATTCTGTGCATACAGCACCAGCTGGGGGTTTTATTTACTTATTTTGGGGTTTGAGACAGGATCTCTCTGTGGCCTCTGCCTGCTGTGTGTTGGGTGCTACCACTCCTGGATTTATTTTGTTTTGAGTGACAATCTCACTGTTCTCCGGGCTGCCCTGGAGATCCTGGGCTCAGGTGACGGCCTTCCTCAGCCTCCTGGGAAGCTGGAGCTACAGATGAAGGCTGGTACAACCAGCTATGTGCTTCCTTTTAACAAGAACACTCAAGATTTCTTCATCTCTCAGAGCCTTTTGTGTAGGATGTCTTTAAGTCTTCTCCTCTTCAGCAGCCCCTGCCTGGGTTGTACAACTAACAGAAAAGACCGTTAAGCTGAAACAAGAAAGAATTTAGCATTTGTGCAGCTTGGGATTCTTGGACAAGCACGAGGGGGTTTTCCTATTAACATAGGACATTCTTGGTGTCCTGAACACCCTGTAGTAGACTGCCCAGTAGCGCAGCCTGGTGACTAGAGAGACTGCTCTGGTGCTGAACCTCCTTAACTCAGGGTAGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCTGTAGTAGACTGCCCA
59.59
TCCCACAGGTTAGGTCTCCC
60.25
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCTGTAGTAGACTGCCCA
59.59
CCACCATCCCACAGGTTAGG
59.74
172
PCR template sequence:
TTCTTGGTGTCCTGAACACCCTGTAGTAGACTGCCCAGTAGCGCAGCCTGGTGACTAGAGAGACTGCTCTGGTGCTGAACCTCCTTAACTCAGGGTAGCAATATCCTTGAAATGGCCCCGAATAACCCAGAAGGCCAGAAAACTAGAGACAGGAGTGAGAGGGGGGAGACCTAACCTGTGGGATGGTGGGCGTCAGTGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-370-3p(2), mmu-miR-7b-5p(1), mmu-miR-103-3p(1), mmu-miR-216a-5p(1), mmu-miR-7a-5p(1), mmu-miR-143-3p(1), mmu-miR-138-5p(1), mmu-miR-214-3p(1), mmu-miR-433-5p(1), mmu-miR-107-3p(1), mmu-miR-188-3p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTCAGGGTAGCAATATCCTTGAAAT
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
0.803508822
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page