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mmu_ciHnrnpf_1491
Basic information of circular RNA
PanCircBase ID:
mmu_ciHnrnpf_1491
mm39_Chr. Position ID:
chr6|117894559|117896050|+
Gene name:
Hnrnpf
Transcript:
ENSMUST00000177743.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
1491
Exon/intron sizes in nt:
1491
Flanking exon/introns:
chr6:117894559-117896059
Splice length:
1491
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTTTTAGAGCAGAAAAAGGCAGTAGTTTTGAAGCCGCGGCTCTCGTGGTCTTAAGAGTGTAACTTTCTGAGTAAGAGAATCTGCCTGGACGCGCTCCCGGCGTTCCGGAGGTTAAAACTCATTTACAAAATGGAGGGAGGACGAGGGCGGGCTCCCAGTGAAAACTCCGGCGACTTCCTGGAACACAAAGATGCACGGAGGAGGAGGGTGCAGCAAGGCTCCCACCAAGCGGGCCCGAACAAAAGAACTAGGTGGGTGGTGCTTGAGCCGCCCTGTTTGTTCGGCCGATAAACTTAACTAGTCCAGGATTCAAAGGGCGCACCTCGTCTATCTTACCTGGATCTACCTGAAGGCAGCGAAAATCCAGTTTAACCAGTATCACTGACTGGGTAGCTTCCTAGAAAAGCAGTCTCTGCCTGATTTTTTTTTTTTTTTAAATAGTGCATTTTCTTTAGTGCTCAAGTTGTGGAAATTAAGAGGGCATGTAGGCCTTGGCTGGCTACAGTATTAGGAGCCAGTCACCCAGAATGATGCAAATGGATCCGGTAGCGTGTCTTGCAATTAAAACCAAATCTCTGGGTGCTCAAACAGTACTTCTAATGAGACCATTCCATCTGCTCTTTTTGCTGGGCATGTCTCCACAGTTCACATATTCACAGGTCTTGTGCCAGTACGTTAATGTAGGTCTAGCTGCCAGCTGCGTGCCCTGTGGTCTCTCCAAGGGAGGCTACAGGTATTACCTACCACACTGGGTAGAAGATCGGAGTTGGAAGAAGGGGATCCAGTCATTACAATTTTATGGGCAGGAATATGGTTGAAACTCTGAAGTGAAACCCTGTTACAGAGTCTTTGAAACTTTTATTTTAAAATAGGCTTAGCACCCTCCCATACCTTAGTAATAATCACAGAAAGTATGAGACAATGCAAATGCAATTACCTCTACTTTAAGACACTAGGCAAAAATTACCACATTTCCAAAATGAAGAATGCAGCATAAGTTTTCATAGGATTCAGCTCATGTCCTTATCATTTAAGGATAGCCTTTTCGCATGGGTTATGATTAGTGAAAAGCATTGTCATCTGGAGGTGTCCCCTGACCCCCACCACACCCCCAGCAGGGGGGACAAAATAAAACAGGATTTTAAGTGAACTCTACATTGCCTCTAGAGGAATTTCAGGAAGTGCCCCCAGATCCCAGCTCTCTCCCTTTGCCTTCCTTCATTTAAATTTTAAATTTCTCTTACATTTAAATTAAGCTCTGATTAGTTCTCTGCTAAGTAAATGAGTTGTTTGCTGATGTCCTCTACCCAGGAAAAGATGAAACAAATAATGGAAACCTAAATATGTTGGTCCTAGGGCTATAATAAATATATTTCTGGACATGAGCATCTTAGCTTGCTCTGAGCCCAGCTCCCAGAAGGTCCCTTCTGTACAATAATGCATGGAATCTGAGGCCATGAGACCAATCTTGGGTTTTGTGTTTTGTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTAGCTTGCTCTGAGCCCAG
59.75
CCGCGGCTTCAAAACTACTG
59.83
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTAGCTTGCTCTGAGCCCA
59.75
CCGCGGCTTCAAAACTACTG
59.83
141
PCR template sequence:
ATCTTAGCTTGCTCTGAGCCCAGCTCCCAGAAGGTCCCTTCTGTACAATAATGCATGGAATCTGAGGCCATGAGACCAATCTTGGGTTTTGTGTTTTGTTGTAAGTTTTAGAGCAGAAAAAGGCAGTAGTTTTGAAGCCGCGGCTCTCGTGGTCTTAAGAGTGTAACTTTCTGAGTAAGAGAATCTGCCTGGACGCGCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-199a-5p(1), mmu-miR-429-3p(1), mmu-miR-375-3p(1), mmu-miR-135a-5p(1), mmu-miR-196a-5p(1), mmu-miR-495-3p(1), mmu-miR-24-3p(1), mmu-miR-136-5p(1), mmu-miR-127-3p(1), mmu-miR-370-3p(1), mmu-miR-98-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTGTGTTTTGTTGTAAGTTTTAGAG
siRNA sets
AAACTTACAACAAAACACA, AAAACTTACAACAAAACAC, AACTTACAACAAAACACAA
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
0.769594617
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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