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mmu_circPhf21a_315
Basic information of circular RNA
PanCircBase ID:
mmu_circPhf21a_315
mm39_Chr. Position ID:
chr2|92174888|92181976|+
Gene name:
Phf21a
Transcript:
ENSMUST00000068702.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
8,9,10,11,12
Exon/intron offsets:
0,3452,4334,4844,7065
Genomic length:
7088
Exon/intron sizes in nt:
99,52,80,61,23
Flanking exon/introns:
chr2:92161153-92174888|chr2:92181976-92187208
Splice length:
315
Other database IDs:
circAtlas: hsa-PHF21A_0012
Human Ortholog IDs:
Mature spliced Sequence:
ACAGTTAAATCCCACCCAGAAGCAGAGGAAAAACAAGCAGAGAGCCGTACCGTTACCCCACCTGCTGCACCAAAACCAAAACGAGAAGAGAACCCTCAGAAACTTGCCTTCATGGTGTCTCTAGGGTTGGTAACACATGACCATCTAGAAGAAATCCAAAGCAAGAGGCAGGAAAGAAAGAGAAGAACAACAGCAAACCCGGTGTACAGTGGGGCTGTCTTTGAGCCAGAGCGTAAGAAGAGTGCAGTCACTTACCTTAACAGCACAATGCATCCTGGGACGCGGAAGAGAGCCAATGAGGAACACTGGCCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTCTTTGAGCCAGAGCGTA
59.03
GGTACGGCTCTCTGCTTGTT
60.04
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGAGCGTAAGAAGAGTGCA
60.07
GGTACGGCTCTCTGCTTGTT
60.04
141
PCR template sequence:
TGTCTTTGAGCCAGAGCGTAAGAAGAGTGCAGTCACTTACCTTAACAGCACAATGCATCCTGGGACGCGGAAGAGAGCCAATGAGGAACACTGGCCAAAGACAGTTAAATCCCACCCAGAAGCAGAGGAAAAACAAGCAGAGAGCCGTACCGTTACCCCACCTGCTGCACCAAAACCAAAACGAGAAGAGAACCCTCAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-33-5p(1), mmu-miR-25-3p(1), mmu-miR-1198-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACACTGGCCAAAGACAGTTAAATCCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPHF21A_315_ORF_1
0.878
0.159515074
0.684034208
519
ORF sequence:
ATGGTGTCTCTAGGGTTGGTAACACATGACCATCTAGAAGAAATCCAAAGCAAGAGGCAGGAAAGAAAGAGAAGAACAACAGCAAACCCGGTGTACAGTGGGGCTGTCTTTGAGCCAGAGCGTAAGAAGAGTGCAGTCACTTACCTTAACAGCACAATGCATCCTGGGACGCGGAAGAGAGCCAATGAGGAACACTGGCCAAAGACAGTTAAATCCCACCCAGAAGCAGAGGAAAAACAAGCAGAGAGCCGTACCGTTACCCCACCTGCTGCACCAAAACCAAAACGAGAAGAGAACCCTCAGAAACTTGCCTTCATGGTGTCTCTAGGGTTGGTAACACATGACCATCTAGAAGAAATCCAAAGCAAGAGGCAGGAAAGAAAGAGAAGAACAACAGCAAACCCGGTGTACAGTGGGGCTGTCTTTGAGCCAGAGCGTAAGAAGAGTGCAGTCACTTACCTTAACAGCACAATGCATCCTGGGACGCGGAAGAGAGCCAATGAGGAACACTGGCCAAAG
Peptide sequence:
MVSLGLVTHDHLEEIQSKRQERKRRTTANPVYSGAVFEPERKKSAVTYLNSTMHPGTRKRANEEHWPKTVKSHPEAEEKQAESRTVTPPAAPKPKREENPQKLAFMVSLGLVTHDHLEEIQSKRQERKRRTTANPVYSGAVFEPERKKSAVTYLNSTMHPGTRKRANEEHWPK
IRESfinder result
IRESfinder score
0.508260447
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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