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mmu_circCntrl_522
Basic information of circular RNA
PanCircBase ID:
mmu_circCntrl_522
mm39_Chr. Position ID:
chr2|35065120|35066334|+
Gene name:
Cntrl
Transcript:
ENSMUST00000156933.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
40,41,42
Exon/intron offsets:
0,429,1019
Genomic length:
1214
Exon/intron sizes in nt:
2,64,63,195
Flanking exon/introns:
chr2:35063169-35065120|chr2:35066334-35068050
Splice length:
522
Other database IDs:
circAtlas: hsa-CNTRL_0044
Human Ortholog IDs:
Mature spliced Sequence:
GTAGCAAACCAGAAAGACTTGGAGAGGAGGCAGATGGAGGTCAGTGACGCAATGAGGACGCTGAAGTCGGAGGTGAAAGACGAAATCAGAACCAGTCTGAGGAACCTCAACCAGTTCCTTCCAGAACTTCCAGCAGATCTAGCGTCTATTTTGGAAAGAAATGAAAACTTAAGAGAGTTGGAAAGCTTGAAAGAGAACTTCCCGTTTACCACAAAAGAGAGGATTTTTGAAGAAAAATCCAACTTTCCCCAAGTTCACATCATGGATGAACACTGGCGTGGAGAAGCACTCCGTCAAAGGCTGCGCCGCCATGAAGATCAACTCAAGGCTCAACTTCGACACTGTATGTCTAAGCAAGCAGAAGTATTGATCAAAGGAAAGCAGCAGACAGAGGGCACCCTACACAGTCTGAGGAGACAAGTTGATGCTTTAGGAGAACTGGTCACTAGTACCTCCACAGACTCAGCATCATCACCCAGTCTGCCTTCCCTTGTGGAGGACTCCCAGCATGGGCATAGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCCACAGACTCAGCATCA
59.1
CCGACTTCAGCGTCCTCATT
60.11
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCTCCACAGACTCAGCATC
59.1
CCGACTTCAGCGTCCTCATT
60.11
142
PCR template sequence:
TGATGCTTTAGGAGAACTGGTCACTAGTACCTCCACAGACTCAGCATCATCACCCAGTCTGCCTTCCCTTGTGGAGGACTCCCAGCATGGGCATAGTCAGGTAGCAAACCAGAAAGACTTGGAGAGGAGGCAGATGGAGGTCAGTGACGCAATGAGGACGCTGAAGTCGGAGGTGAAAGACGAAATCAGAACCAGTCTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGGCATAGTCAGGTAGCAAACCAGA
siRNA sets
TTTGCTACCTGACTATGCC,TTGCTACCTGACTATGCCC,GTTTGCTACCTGACTATGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCNTRL_522_ORF_1
1.0097
0.191583481
0.990889492
1011
ORF sequence:
ATGGAGGTCAGTGACGCAATGAGGACGCTGAAGTCGGAGGTGAAAGACGAAATCAGAACCAGTCTGAGGAACCTCAACCAGTTCCTTCCAGAACTTCCAGCAGATCTAGCGTCTATTTTGGAAAGAAATGAAAACTTAAGAGAGTTGGAAAGCTTGAAAGAGAACTTCCCGTTTACCACAAAAGAGAGGATTTTTGAAGAAAAATCCAACTTTCCCCAAGTTCACATCATGGATGAACACTGGCGTGGAGAAGCACTCCGTCAAAGGCTGCGCCGCCATGAAGATCAACTCAAGGCTCAACTTCGACACTGTATGTCTAAGCAAGCAGAAGTATTGATCAAAGGAAAGCAGCAGACAGAGGGCACCCTACACAGTCTGAGGAGACAAGTTGATGCTTTAGGAGAACTGGTCACTAGTACCTCCACAGACTCAGCATCATCACCCAGTCTGCCTTCCCTTGTGGAGGACTCCCAGCATGGGCATAGTCAGGTAGCAAACCAGAAAGACTTGGAGAGGAGGCAGATGGAGGTCAGTGACGCAATGAGGACGCTGAAGTCGGAGGTGAAAGACGAAATCAGAACCAGTCTGAGGAACCTCAACCAGTTCCTTCCAGAACTTCCAGCAGATCTAGCGTCTATTTTGGAAAGAAATGAAAACTTAAGAGAGTTGGAAAGCTTGAAAGAGAACTTCCCGTTTACCACAAAAGAGAGGATTTTTGAAGAAAAATCCAACTTTCCCCAAGTTCACATCATGGATGAACACTGGCGTGGAGAAGCACTCCGTCAAAGGCTGCGCCGCCATGAAGATCAACTCAAGGCTCAACTTCGACACTGTATGTCTAAGCAAGCAGAAGTATTGATCAAAGGAAAGCAGCAGACAGAGGGCACCCTACACAGTCTGAGGAGACAAGTTGATGCTTTAGGAGAACTGGTCACTAGTACCTCCACAGACTCAGCATCATCACCCAGTCTGCCTTCCCTTGTGGAGGACTCCCAGCATGGGCATAGTCAG
Peptide sequence:
MEVSDAMRTLKSEVKDEIRTSLRNLNQFLPELPADLASILERNENLRELESLKENFPFTTKERIFEEKSNFPQVHIMDEHWRGEALRQRLRRHEDQLKAQLRHCMSKQAEVLIKGKQQTEGTLHSLRRQVDALGELVTSTSTDSASSPSLPSLVEDSQHGHSQVANQKDLERRQMEVSDAMRTLKSEVKDEIRTSLRNLNQFLPELPADLASILERNENLRELESLKENFPFTTKERIFEEKSNFPQVHIMDEHWRGEALRQRLRRHEDQLKAQLRHCMSKQAEVLIKGKQQTEGTLHSLRRQVDALGELVTSTSTDSASSPSLPSLVEDSQHGHSQ
IRESfinder result
IRESfinder score
0.556043478
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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