top of page
mmu_circPclo_1392
Basic information of circular RNA
PanCircBase ID:
mmu_circPclo_1392
mm39_Chr. Position ID:
chr5|14589423|14590815|+
Gene name:
Pclo
Transcript:
ENSMUST00000182407.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
1392
Exon/intron sizes in nt:
1392
Flanking exon/introns:
chr5:14572338-14589423|chr5:14590815-14718978
Splice length:
1392
Other database IDs:
circBase: mmu_circ_0012310, CIRCpedia: MMU_CIRCpedia_9591, circAtlas: mmu-Pclo_0001
circBase: hsa_circ_0080941, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_59127
Human Ortholog IDs:
Mature spliced Sequence:
ATCAAAGAGTGGCTCTGTTTAAACTGTCAGATGCAAAGAGCTCTGGGAGGTGAACTGGCAGCAATCCCATCCTCACCGCAGCCAACCCCAAAGGCTGCCTCAGTACAGCCAGCAACAGCCAGCAAATCACCTGTACCGTCACAGCAGGCTTCCCCAAAGAAGGAACTTCCATCCAAACAGGACAGCCCCAAAGCACCGGAGTCCAAAAAGCCACCGCCACTGGTGAAACAGCCAACCCTTCATGGACCTACCCCGGCTACAGCCCCACAGCCTCCAGTGGCAGAGGCCTTACCTAAGCCAGCCCCTCCCAAGAAGCCTTCTGCAGCCCTACCTGAACAAGCAAAGGCCCCTGTTGCAGATGTTGAACCAAAGCAACCGAAGACGACAGAGACACTCACAGATAGCCCATCTTCAGCAGCAGCAACCTCAAAGCCTGCTATTCTGAGCTCTCAAGTGCAGGCACAGGCTCAAGTGACAACGGCCCCTCCTTTGAAAACAGACTCTGCCAAAACTTCACAGAGTTTCCCACCAACAGGAGATACAATTACCCCACTTGATTCTAAAGCCATGCCCAGGCCTGCATCAGACTCAAAAATTGTTTCACATCCTGGGCCCACTTCTGAGAGCAAGGATCCAGTTCAGAAGAAGGAGGAGCCTAAGAAAGCACAAACCAAGGTGACCCCTAAACCAGATACAAAGCCAGTACCAAAAGGATCCCCAACACCGTCTGGCACACGACCTACGACTGGCCAAGCCACACCCCAGTCTCAGCAGCCCCCGAAGCCTCCGGAGCAGTCAAGACGGTTCAGTTTGAATCTGGGGGGTATCGCTGATGCCCCCAAATCACAGCCCACAACTCCTCAAGAAACTGTGACAGGGAAGCTATTCGGGTTCGGAGCATCCATCTTTAGCCAAGCATCAAACTTAATTTCCACAGCAGGTCAGCAAGCACCTCATCCACAGACTGGGCCAGCTGCCCCATCAAAGCAAGCCCCTCCCCCATCCCAGACTCTGGCTGCTCAGGGACCACCCAAGTCCACAGGTCCGCACCCATCAGCACCTGCCAAGACGACTGCTGTGAAGAAGGAAACAAAAGGCCCGGCAGCTGAAAACTTAGAGGCCAAACCTGTGCAAGCTCCAACAGTGAAGAAGGCAGAGAAAGACAAGAAGCCCCCACCTGGGAAGGTCAGCAAACCTCCACCTACAGAGCCCGAGAAGGCCGTCCTCGCCCAGAAGCCAGACAAGACCACCAAACCCAAACCGGCCTGTCCTCTCTGCAGAACGGAACTCAACGTAGGGTCTCAGGATCCTCCCAACTTCAACACCTGCACAGAATGCAAGAATCAAGTTTGCAATCTCTGTGGATTTAACCCAACGCCCCACCTGACTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTCTCAGGATCCTCCCAA
60.33
AGTTCACCTCCCAGAGCTCT
59.88
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTCTCAGGATCCTCCCAA
60.33
CAGTTCACCTCCCAGAGCTC
59.75
153
PCR template sequence:
CGTAGGGTCTCAGGATCCTCCCAACTTCAACACCTGCACAGAATGCAAGAATCAAGTTTGCAATCTCTGTGGATTTAACCCAACGCCCCACCTGACTGAGATCAAAGAGTGGCTCTGTTTAAACTGTCAGATGCAAAGAGCTCTGGGAGGTGAACTGGCAGCAATCCCATCCTCACCGCAGCCAACCCCAAAGGCTGCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-135a-5p(1), mmu-miR-125b-5p(1), mmu-miR-351-5p(1), mmu-miR-370-3p(1), mmu-miR-362-5p(1), mmu-miR-673-5p(1), mmu-miR-670-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCACCTGACTGAGATCAAAGAGTGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPCLO_1392_ORF_1
1.055
0.210436951
0.999999972
2754
ORF sequence:
ATGCAAAGAGCTCTGGGAGGTGAACTGGCAGCAATCCCATCCTCACCGCAGCCAACCCCAAAGGCTGCCTCAGTACAGCCAGCAACAGCCAGCAAATCACCTGTACCGTCACAGCAGGCTTCCCCAAAGAAGGAACTTCCATCCAAACAGGACAGCCCCAAAGCACCGGAGTCCAAAAAGCCACCGCCACTGGTGAAACAGCCAACCCTTCATGGACCTACCCCGGCTACAGCCCCACAGCCTCCAGTGGCAGAGGCCTTACCTAAGCCAGCCCCTCCCAAGAAGCCTTCTGCAGCCCTACCTGAACAAGCAAAGGCCCCTGTTGCAGATGTTGAACCAAAGCAACCGAAGACGACAGAGACACTCACAGATAGCCCATCTTCAGCAGCAGCAACCTCAAAGCCTGCTATTCTGAGCTCTCAAGTGCAGGCACAGGCTCAAGTGACAACGGCCCCTCCTTTGAAAACAGACTCTGCCAAAACTTCACAGAGTTTCCCACCAACAGGAGATACAATTACCCCACTTGATTCTAAAGCCATGCCCAGGCCTGCATCAGACTCAAAAATTGTTTCACATCCTGGGCCCACTTCTGAGAGCAAGGATCCAGTTCAGAAGAAGGAGGAGCCTAAGAAAGCACAAACCAAGGTGACCCCTAAACCAGATACAAAGCCAGTACCAAAAGGATCCCCAACACCGTCTGGCACACGACCTACGACTGGCCAAGCCACACCCCAGTCTCAGCAGCCCCCGAAGCCTCCGGAGCAGTCAAGACGGTTCAGTTTGAATCTGGGGGGTATCGCTGATGCCCCCAAATCACAGCCCACAACTCCTCAAGAAACTGTGACAGGGAAGCTATTCGGGTTCGGAGCATCCATCTTTAGCCAAGCATCAAACTTAATTTCCACAGCAGGTCAGCAAGCACCTCATCCACAGACTGGGCCAGCTGCCCCATCAAAGCAAGCCCCTCCCCCATCCCAGACTCTGGCTGCTCAGGGACCACCCAAGTCCACAGGTCCGCACCCATCAGCACCTGCCAAGACGACTGCTGTGAAGAAGGAAACAAAAGGCCCGGCAGCTGAAAACTTAGAGGCCAAACCTGTGCAAGCTCCAACAGTGAAGAAGGCAGAGAAAGACAAGAAGCCCCCACCTGGGAAGGTCAGCAAACCTCCACCTACAGAGCCCGAGAAGGCCGTCCTCGCCCAGAAGCCAGACAAGACCACCAAACCCAAACCGGCCTGTCCTCTCTGCAGAACGGAACTCAACGTAGGGTCTCAGGATCCTCCCAACTTCAACACCTGCACAGAATGCAAGAATCAAGTTTGCAATCTCTGTGGATTTAACCCAACGCCCCACCTGACTGAGATCAAAGAGTGGCTCTGTTTAAACTGTCAGATGCAAAGAGCTCTGGGAGGTGAACTGGCAGCAATCCCATCCTCACCGCAGCCAACCCCAAAGGCTGCCTCAGTACAGCCAGCAACAGCCAGCAAATCACCTGTACCGTCACAGCAGGCTTCCCCAAAGAAGGAACTTCCATCCAAACAGGACAGCCCCAAAGCACCGGAGTCCAAAAAGCCACCGCCACTGGTGAAACAGCCAACCCTTCATGGACCTACCCCGGCTACAGCCCCACAGCCTCCAGTGGCAGAGGCCTTACCTAAGCCAGCCCCTCCCAAGAAGCCTTCTGCAGCCCTACCTGAACAAGCAAAGGCCCCTGTTGCAGATGTTGAACCAAAGCAACCGAAGACGACAGAGACACTCACAGATAGCCCATCTTCAGCAGCAGCAACCTCAAAGCCTGCTATTCTGAGCTCTCAAGTGCAGGCACAGGCTCAAGTGACAACGGCCCCTCCTTTGAAAACAGACTCTGCCAAAACTTCACAGAGTTTCCCACCAACAGGAGATACAATTACCCCACTTGATTCTAAAGCCATGCCCAGGCCTGCATCAGACTCAAAAATTGTTTCACATCCTGGGCCCACTTCTGAGAGCAAGGATCCAGTTCAGAAGAAGGAGGAGCCTAAGAAAGCACAAACCAAGGTGACCCCTAAACCAGATACAAAGCCAGTACCAAAAGGATCCCCAACACCGTCTGGCACACGACCTACGACTGGCCAAGCCACACCCCAGTCTCAGCAGCCCCCGAAGCCTCCGGAGCAGTCAAGACGGTTCAGTTTGAATCTGGGGGGTATCGCTGATGCCCCCAAATCACAGCCCACAACTCCTCAAGAAACTGTGACAGGGAAGCTATTCGGGTTCGGAGCATCCATCTTTAGCCAAGCATCAAACTTAATTTCCACAGCAGGTCAGCAAGCACCTCATCCACAGACTGGGCCAGCTGCCCCATCAAAGCAAGCCCCTCCCCCATCCCAGACTCTGGCTGCTCAGGGACCACCCAAGTCCACAGGTCCGCACCCATCAGCACCTGCCAAGACGACTGCTGTGAAGAAGGAAACAAAAGGCCCGGCAGCTGAAAACTTAGAGGCCAAACCTGTGCAAGCTCCAACAGTGAAGAAGGCAGAGAAAGACAAGAAGCCCCCACCTGGGAAGGTCAGCAAACCTCCACCTACAGAGCCCGAGAAGGCCGTCCTCGCCCAGAAGCCAGACAAGACCACCAAACCCAAACCGGCCTGTCCTCTCTGCAGAACGGAACTCAACGTAGGGTCTCAGGATCCTCCCAACTTCAACACCTGCACAGAATGCAAGAATCAAGTTTGCAATCTCTGTGGATTTAACCCAACGCCCCACCTGACTGAG
Peptide sequence:
MQRALGGELAAIPSSPQPTPKAASVQPATASKSPVPSQQASPKKELPSKQDSPKAPESKKPPPLVKQPTLHGPTPATAPQPPVAEALPKPAPPKKPSAALPEQAKAPVADVEPKQPKTTETLTDSPSSAAATSKPAILSSQVQAQAQVTTAPPLKTDSAKTSQSFPPTGDTITPLDSKAMPRPASDSKIVSHPGPTSESKDPVQKKEEPKKAQTKVTPKPDTKPVPKGSPTPSGTRPTTGQATPQSQQPPKPPEQSRRFSLNLGGIADAPKSQPTTPQETVTGKLFGFGASIFSQASNLISTAGQQAPHPQTGPAAPSKQAPPPSQTLAAQGPPKSTGPHPSAPAKTTAVKKETKGPAAENLEAKPVQAPTVKKAEKDKKPPPGKVSKPPPTEPEKAVLAQKPDKTTKPKPACPLCRTELNVGSQDPPNFNTCTECKNQVCNLCGFNPTPHLTEIKEWLCLNCQMQRALGGELAAIPSSPQPTPKAASVQPATASKSPVPSQQASPKKELPSKQDSPKAPESKKPPPLVKQPTLHGPTPATAPQPPVAEALPKPAPPKKPSAALPEQAKAPVADVEPKQPKTTETLTDSPSSAAATSKPAILSSQVQAQAQVTTAPPLKTDSAKTSQSFPPTGDTITPLDSKAMPRPASDSKIVSHPGPTSESKDPVQKKEEPKKAQTKVTPKPDTKPVPKGSPTPSGTRPTTGQATPQSQQPPKPPEQSRRFSLNLGGIADAPKSQPTTPQETVTGKLFGFGASIFSQASNLISTAGQQAPHPQTGPAAPSKQAPPPSQTLAAQGPPKSTGPHPSAPAKTTAVKKETKGPAAENLEAKPVQAPTVKKAEKDKKPPPGKVSKPPPTEPEKAVLAQKPDKTTKPKPACPLCRTELNVGSQDPPNFNTCTECKNQVCNLCGFNPTPHLTE
IRESfinder result
IRESfinder score
0.465500959
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page