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mmu_ciPhf21a_434
Basic information of circular RNA
PanCircBase ID:
mmu_ciPhf21a_434
mm39_Chr. Position ID:
chr2|92016954|92017388|+
Gene name:
Phf21a
Transcript:
ENSMUST00000111291.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
434
Exon/intron sizes in nt:
434
Flanking exon/introns:
chr2:92016954-92044393
Splice length:
434
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTTCCTTGCTATTTTCTTCTGTCTTCACTTATATATGGAATCTGTTGTGAGCTTAACATTAGCTTACCGAGGGCCATTTTAAATGTCTAAGAATACATTTTAAAATCTCAGGGCATGTTTTAGTGGCAAAGAGGAATTTTTTGAATGTGGTAATGCTCATGTTTATTAAGAATTTCAGTACTCAGCACTTCATATGTGTACAGCTATCCTTGAGGGAAGGACGTAGCAACAGTGCAGGAAATCCTCACCACACACACATTTGACTAACATGTTCAAACTATTTCAGGGCTTTTCTCTTTCTTGAGACTTTTGATTTTGGAAACTCAATATGTACATTTTGACTGACATTGCTGGGTTGCCTATTATAGAAAGTTTTTTTTTTTTTCCTTATGTACTATTGGAGCCATTTTTAACTTAAGTTTTTGGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACTGACATTGCTGGGTTGC
59.76
AAAATGGCCCTCGGTAAGCT
59.67
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACTGACATTGCTGGGTTGC
59.76
TGGCCCTCGGTAAGCTAATG
59.53
171
PCR template sequence:
GTACATTTTGACTGACATTGCTGGGTTGCCTATTATAGAAAGTTTTTTTTTTTTTCCTTATGTACTATTGGAGCCATTTTTAACTTAAGTTTTTGGACAGGTAAGTTCCTTGCTATTTTCTTCTGTCTTCACTTATATATGGAATCTGTTGTGAGCTTAACATTAGCTTACCGAGGGCCATTTTAAATGTCTAAGAATAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-125a-5p(2), mmu-miR-125b-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTTTTTGGACAGGTAAGTTCCTTGC
siRNA sets
AACTTACCTGTCCAAAAAC, GCAAGGAACTTACCTGTCC, ACTTACCTGTCCAAAAACT
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
0.945835043
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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