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mmu_circApc_843
Basic information of circular RNA
PanCircBase ID:
mmu_circApc_843
mm39_Chr. Position ID:
chr18|34394057|34429182|+
Gene name:
Apc
Transcript:
ENSMUST00000115781.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
2,3,4,5,6,7,8,9
Exon/intron offsets:
0,7293,8051,11434,15559,18264,21002,35026
Genomic length:
35125
Exon/intron sizes in nt:
153,82,199,109,114,84,3,99
Flanking exon/introns:
chr18:34354329-34394057|chr18:34429182-34431475
Splice length:
843
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCCAAGGGTAGCCAAGGATGGCTGCAGCTTCATATGATCAGTTGTTAAAGCAAGTTGAGGCACTGAAGATGGAGAACTCAAATCTTCGACAAGAGCTAGAAGATAATTCCAATCATCTTACAAAACTGGAAACTGAGGCATCTAATATGAAGGAAGTACTTAAGCAGCTACAGGGAAGTATTGAAGATGAGACTATGACTTCTGGACAGATTGACTTACTAGAGCGTCTTAAAGAATTTAACTTAGATAGTAATTTCCCCGGAGTGAAACTACGCTCAAAAATGTCCCTTCGCTCCTACGGAAGTCGGGAAGGATCTGTATCCAGCCGTTCAGGAGAATGCAGTCCTGTCCCCATGGGGTCATTCCCAAGAAGAACATTTGTAAATGGAAGCAGAGAGAGTACTGGGTATCTAGAAGAGCTTGAAAAAGAAAGATCATTACTCCTTGCTGATCTTGACAAAGAAGAGAAGGAAAAGGACTGGTATTATGCTCAACTTCAGAACCTCACAAAAAGAATAGATAGCCTGCCTTTAACTGAAAATTTTTCCTTACAGACAGACATGACAAGACGGCAGCTGGAGTATGAAGCAAGGCAGATCAGGGCTGCAATGGAGGAGCAGCTTGGCACCTGCCAGGACATGGAGAAGCGTGCACAGCGAAGAATAGCCAGGATCCAGCAAATAGAAAAGGACATACTGCGCGTGCGCCAGCTTTTACAGTCCCAGGCGGCGGAAGCGGAGCGAAGTCCAGCTACACGTGTGGATCACGAAACAGCCAGTGTTTTGAGTTCTAGCGGCACGCACTCTGCTCCTCGAAGGTTGACAAGTCATCTGGGGACAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTCCAGCTACACGTGTGG
59.97
TCTTCAGTGCCTCAACTTGCT
59.86
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGATCACGAAACAGCCA
59.89
TCTTCAGTGCCTCAACTTGCT
59.86
155
PCR template sequence:
AAGTCCAGCTACACGTGTGGATCACGAAACAGCCAGTGTTTTGAGTTCTAGCGGCACGCACTCTGCTCCTCGAAGGTTGACAAGTCATCTGGGGACAAAGGTCCAAGGGTAGCCAAGGATGGCTGCAGCTTCATATGATCAGTTGTTAAAGCAAGTTGAGGCACTGAAGATGGAGAACTCAAATCTTCGACAAGAGCTAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-217-5p(1), mmu-miR-136-5p(1), mmu-miR-127-5p(1), mmu-miR-362-5p(1), mmu-miR-452-3p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGGGGACAAAGGTCCAAGGGTAGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPC_843_ORF_1
0.877
0.139370895
0.950653116
837
ORF sequence:
ATGGCTGCAGCTTCATATGATCAGTTGTTAAAGCAAGTTGAGGCACTGAAGATGGAGAACTCAAATCTTCGACAAGAGCTAGAAGATAATTCCAATCATCTTACAAAACTGGAAACTGAGGCATCTAATATGAAGGAAGTACTTAAGCAGCTACAGGGAAGTATTGAAGATGAGACTATGACTTCTGGACAGATTGACTTACTAGAGCGTCTTAAAGAATTTAACTTAGATAGTAATTTCCCCGGAGTGAAACTACGCTCAAAAATGTCCCTTCGCTCCTACGGAAGTCGGGAAGGATCTGTATCCAGCCGTTCAGGAGAATGCAGTCCTGTCCCCATGGGGTCATTCCCAAGAAGAACATTTGTAAATGGAAGCAGAGAGAGTACTGGGTATCTAGAAGAGCTTGAAAAAGAAAGATCATTACTCCTTGCTGATCTTGACAAAGAAGAGAAGGAAAAGGACTGGTATTATGCTCAACTTCAGAACCTCACAAAAAGAATAGATAGCCTGCCTTTAACTGAAAATTTTTCCTTACAGACAGACATGACAAGACGGCAGCTGGAGTATGAAGCAAGGCAGATCAGGGCTGCAATGGAGGAGCAGCTTGGCACCTGCCAGGACATGGAGAAGCGTGCACAGCGAAGAATAGCCAGGATCCAGCAAATAGAAAAGGACATACTGCGCGTGCGCCAGCTTTTACAGTCCCAGGCGGCGGAAGCGGAGCGAAGTCCAGCTACACGTGTGGATCACGAAACAGCCAGTGTTTTGAGTTCTAGCGGCACGCACTCTGCTCCTCGAAGGTTGACAAGTCATCTGGGGACAAAGGTCCAAGGGTAG
Peptide sequence:
MAAASYDQLLKQVEALKMENSNLRQELEDNSNHLTKLETEASNMKEVLKQLQGSIEDETMTSGQIDLLERLKEFNLDSNFPGVKLRSKMSLRSYGSREGSVSSRSGECSPVPMGSFPRRTFVNGSRESTGYLEELEKERSLLLADLDKEEKEKDWYYAQLQNLTKRIDSLPLTENFSLQTDMTRRQLEYEARQIRAAMEEQLGTCQDMEKRAQRRIARIQQIEKDILRVRQLLQSQAAEAERSPATRVDHETASVLSSSGTHSAPRRLTSHLGTKVQG
IRESfinder result
IRESfinder score
0.492511413
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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