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mmu_circPhc3_333
Basic information of circular RNA
PanCircBase ID:
mmu_circPhc3_333
mm39_Chr. Position ID:
chr3|31002850|31012235|-
Gene name:
Phc3
Transcript:
ENSMUST00000168645.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,5,4
Exon/intron offsets:
0,2174,9307
Genomic length:
9385
Exon/intron sizes in nt:
99,156,78
Flanking exon/introns:
chr3:30996801-31002850|chr3:31012235-31015876
Splice length:
333
Other database IDs:
circBase: hsa_circ_0067912
Human Ortholog IDs:
Mature spliced Sequence:
GCAAGTTTGTCCAGTGGAAGACCATCTACATCCCCCACAGGCAGTGTTACACAACAGTCAAGTATGTCCCAGACATCTATCCTGTCCGCTTCTCCTGCACCTGCTCAGCTGATGAACCGCTCCCAGACGTCCAGTTCTACCAGCGGCAGTATTACCCAGCAGACTATGCTACTCGGGAGTACCTCTCCCACCCTAACTGCCAGCCAAGCCCAGATGTATCTCCGAGCTCAGATGCTGATTTTCACACCTGCTACCACTGTGGCTGCTGTACAGTCTGACATCCCTGTTGTCTCGTCGTCACCGTCACCTTCCTGTCAGTCTGCAGCTGCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCACACCTGCTACCACTGTG
59.61
TGTGTAACACTGCCTGTGGG
60.18
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACACCTGCTACCACTGTGG
60.6
TGTGTAACACTGCCTGTGGG
60.18
144
PCR template sequence:
GCTGATTTTCACACCTGCTACCACTGTGGCTGCTGTACAGTCTGACATCCCTGTTGTCTCGTCGTCACCGTCACCTTCCTGTCAGTCTGCAGCTGCTCAGGCAAGTTTGTCCAGTGGAAGACCATCTACATCCCCCACAGGCAGTGTTACACAACAGTCAAGTATGTCCCAGACATCTATCCTGTCCGCTTCTCCTGCAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCAGCTGCTCAGGCAAGTTTGTCCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPHC3_333_ORF_1
1.1359
0.160418367
0.86541614
603
ORF sequence:
ATGTCCCAGACATCTATCCTGTCCGCTTCTCCTGCACCTGCTCAGCTGATGAACCGCTCCCAGACGTCCAGTTCTACCAGCGGCAGTATTACCCAGCAGACTATGCTACTCGGGAGTACCTCTCCCACCCTAACTGCCAGCCAAGCCCAGATGTATCTCCGAGCTCAGATGCTGATTTTCACACCTGCTACCACTGTGGCTGCTGTACAGTCTGACATCCCTGTTGTCTCGTCGTCACCGTCACCTTCCTGTCAGTCTGCAGCTGCTCAGGCAAGTTTGTCCAGTGGAAGACCATCTACATCCCCCACAGGCAGTGTTACACAACAGTCAAGTATGTCCCAGACATCTATCCTGTCCGCTTCTCCTGCACCTGCTCAGCTGATGAACCGCTCCCAGACGTCCAGTTCTACCAGCGGCAGTATTACCCAGCAGACTATGCTACTCGGGAGTACCTCTCCCACCCTAACTGCCAGCCAAGCCCAGATGTATCTCCGAGCTCAGATGCTGATTTTCACACCTGCTACCACTGTGGCTGCTGTACAGTCTGACATCCCTGTTGTCTCGTCGTCACCGTCACCTTCCTGTCAGTCTGCAGCTGCTCAG
Peptide sequence:
MSQTSILSASPAPAQLMNRSQTSSSTSGSITQQTMLLGSTSPTLTASQAQMYLRAQMLIFTPATTVAAVQSDIPVVSSSPSPSCQSAAAQASLSSGRPSTSPTGSVTQQSSMSQTSILSASPAPAQLMNRSQTSSSTSGSITQQTMLLGSTSPTLTASQAQMYLRAQMLIFTPATTVAAVQSDIPVVSSSPSPSCQSAAAQ
IRESfinder result
IRESfinder score
0.575379333
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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