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mmu_ciPou6f2_1259
Basic information of circular RNA
PanCircBase ID:
mmu_ciPou6f2_1259
mm39_Chr. Position ID:
chr13|18551751|18553010|-
Gene name:
Pou6f2
Transcript:
ENSMUST00000139064.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
1259
Exon/intron sizes in nt:
1259
Flanking exon/introns:
chr13:18414451-18553010
Splice length:
1259
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAACTGTCATGCCCAGATGCTGGGTGATTCATGGGATGAGTTTTCTAAAATGGACCAAAAAAGAAAAAAAAAAAAAAAGATGCGCGCCGAGTGGGGAATGTGGTTTAGAGTTCCTTCTGCCATGAAGGAGGCGAAAGGCTTCTGCAGAAAGCTGCATTTCCAGTTGTTTATGCGCTGGCTCAAGCCATGGGTTTTATCAACCTGTATTATCTCTCATGAACACCAAAGCCTTTCAGGCCCTCTAGAAGCACTTATAGAAGCAAGATCATTGTGGGGCACGCCATCATTTAAATGTGAAATCACTGTGTTGTTATTTGAAGACTCAGTTATAATCTGACAAGATCTTCAATTTTCCCACAAGCAAGGCAAGTTTGGAGGCTATTTACATCTGTGTGAGTGGTTGGGACACTACAAATACAAAGTATCATTTGAGGATGAACTTAATGATTATTTTGCTACTAAATAGGCTTTAGATATAAGTGTTAAAAAGTATATTGTTTGAGTTTTTATTAGAAGGTATACTGTAATTTTATTGGAGAAGATATTCTCTATATTTTGAAAAGTTTAACTTTTCTTTAAAAGTTTGATACCATCAACACTGGTTGATTTCCAAATTATTCACCAAAAAAAAATAATTATAGTGAAAACTGTTCTGAATAAGAATATTATGTCTCCTACCAAGCCAAACTAACCAAACAACAACAACAACAACAAAACAACCAGCAACAAAACAACCCAGCTATCTACTCTGAGGTCACTGAAAATAGTTTGACTTCTTCATTTATGTAAATGTAAGCAGTTACTTTGTTTTACAGGATGAAGGTTTGTCTGAATAAGTCCTCAGAATAACAATTCAAATTACTTTTAAATTGGTTAAGTGGTCAGTGTTTATTTGACTTATCAGACTGGTTAGAATGTCAATACCCACACTAAAGGACAACCAAGAACTAACAACCCTTGGCCCTCCATGCACTCTAGGTGTTCTGATATCCCACCATTGTTGCTACGTCTTAACTTTCATTTTAATGTTTAAAACAAAGTCTCTCTTATACCATTAAATTGTGCCAAGTACCTTGCCATTCATAAATCATGCATGCTCAGGATACACTAATGCATGAACTTGTTTCAAATTTGAGTGCCTGGGAAGCCAAGAACTTGAGATTAAGCAAATAAAGCAGGAATACACAAGGTAAAAGCAAAAGTAACAAAGTGTGGGGCCTGGCTTCTTAATGTAGGTGGATGATGAAATCTTAATGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGGGCCTGGCTTCTTAAT
60.03
ACTCGGCGCGCATCTTTTT
61.33
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAACAAAGTGTGGGGCCTGG
60.18
ACTCGGCGCGCATCTTTTT
61.33
149
PCR template sequence:
AGATTAAGCAAATAAAGCAGGAATACACAAGGTAAAAGCAAAAGTAACAAAGTGTGGGGCCTGGCTTCTTAATGTAGGTGGATGATGAAATCTTAATGAAGTAACTGTCATGCCCAGATGCTGGGTGATTCATGGGATGAGTTTTCTAAAATGGACCAAAAAAGAAAAAAAAAAAAAAAGATGCGCGCCGAGTGGGGAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-199a-5p(1), mmu-miR-146a-5p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-5101(1), mmu-miR-369-3p(1), mmu-miR-669d-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAATCTTAATGAAGTAACTGTCATGC
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
0.83949689
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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