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mmu_circCiz1_865
Basic information of circular RNA
PanCircBase ID:
mmu_circCiz1_865
mm39_Chr. Position ID:
chr2|32260875|32262507|+
Gene name:
Ciz1
Transcript:
ENSMUST00000113334.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,9,10
Exon/intron offsets:
0,772,1434
Genomic length:
1632
Exon/intron sizes in nt:
54,51,22,198
Flanking exon/introns:
chr2:32260356-32260875|chr2:32262507-32264353
Splice length:
865
Other database IDs:
circAtlas: mmu-Ciz1_0010
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_112167
Human Ortholog IDs:
Mature spliced Sequence:
CTCAGAGGAGTCCACCGAGAAAGGCCCTACAGGGCAGCCACAAGCAAGGGTCCAGCCTCAGACCCAGATGACAGCACCAAAGCAGACACAGACCCCGGATCGGCTGCCTGAGCCACCAGAAGTCCAAATGCTGCCGCGTATCCAGCCACAGGCACTGCAGATCCAGACCCAGCCAAAGCTGCTGAGGCAGGCACAGACACAGACCTCTCCAGAGCACTTAGCGCCCCAGCAGGATCAGGTAGAGCCACAGGTACCATCACAGCCCCCATGGCAGTTGCAGCCACGGGAGACAGACCCACCGAACCAAGCTCAGGCACAGACCCAGCCTCAGCCCCTCTGGCAGGCGCAGTCACAGAAGCAGGCCCAGACACAGGCACATCCACAGGTACCCACCCAAGCACAGTCACAGGAGCAGACATCAGAGAAGACCCAGGACCAGCCTCAGACCTGGCCACAGGGGTCAGTACCCCCACCAGAACAAGCGTCAGGTCCAGCCTGTGCCACGGAACCACAGCTATCCTCTCACGCTGCAGAAGCTGGGAGTGACCCAGACAAGGCCTTGCCAGAACCAGTAAGTGCCCAGAGCAGTGAAGACAGGAGCCGGGAGGCGTCCGCTGGTGGCCTGGATTTGGGAGAATGTGAAAAGAGAGCGGGAGAGATGCTGGGGATGTGGGGGGCTGGGAGCTCCCTGAAGGTCACCATCCTGCAGAGTAGCAACAGCCGGGCCTTTAACACCACACCCCTCACATCTGGACCTCGCCCTGGGGACTCTACCTCTGCCACCCCTGCCATTGCCAGCACACCCTCCAAGCAAAGCCTCCAGTTCTTCTGCTACATCTGCAAGGCCAGCAGCAGCAGCCAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAAGCAAAGCCTCCAGTT
59.81
TTGGTGCTGTCATCTGGGTC
59.96
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCAAGCAAAGCCTCCAGT
60.25
TTGGTGCTGTCATCTGGGTC
59.96
141
PCR template sequence:
GGACTCTACCTCTGCCACCCCTGCCATTGCCAGCACACCCTCCAAGCAAAGCCTCCAGTTCTTCTGCTACATCTGCAAGGCCAGCAGCAGCAGCCAGCAGCTCAGAGGAGTCCACCGAGAAAGGCCCTACAGGGCAGCCACAAGCAAGGGTCCAGCCTCAGACCCAGATGACAGCACCAAAGCAGACACAGACCCCGGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-150-5p(1), mmu-miR-34a-5p(1), mmu-let-7c-5p(1), mmu-miR-298-5p(1), mmu-miR-326-3p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-182-5p(1), mmu-miR-370-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCAGCCAGCAGCTCAGAGGAGTCC
siRNA sets
ACTCCTCTGAGCTGCTGGC, GACTCCTCTGAGCTGCTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCIZ1_865_ORF_1
0.8376
0.300581693
0.98308776
909
ORF sequence:
ATGACAGCACCAAAGCAGACACAGACCCCGGATCGGCTGCCTGAGCCACCAGAAGTCCAAATGCTGCCGCGTATCCAGCCACAGGCACTGCAGATCCAGACCCAGCCAAAGCTGCTGAGGCAGGCACAGACACAGACCTCTCCAGAGCACTTAGCGCCCCAGCAGGATCAGGTAGAGCCACAGGTACCATCACAGCCCCCATGGCAGTTGCAGCCACGGGAGACAGACCCACCGAACCAAGCTCAGGCACAGACCCAGCCTCAGCCCCTCTGGCAGGCGCAGTCACAGAAGCAGGCCCAGACACAGGCACATCCACAGGTACCCACCCAAGCACAGTCACAGGAGCAGACATCAGAGAAGACCCAGGACCAGCCTCAGACCTGGCCACAGGGGTCAGTACCCCCACCAGAACAAGCGTCAGGTCCAGCCTGTGCCACGGAACCACAGCTATCCTCTCACGCTGCAGAAGCTGGGAGTGACCCAGACAAGGCCTTGCCAGAACCAGTAAGTGCCCAGAGCAGTGAAGACAGGAGCCGGGAGGCGTCCGCTGGTGGCCTGGATTTGGGAGAATGTGAAAAGAGAGCGGGAGAGATGCTGGGGATGTGGGGGGCTGGGAGCTCCCTGAAGGTCACCATCCTGCAGAGTAGCAACAGCCGGGCCTTTAACACCACACCCCTCACATCTGGACCTCGCCCTGGGGACTCTACCTCTGCCACCCCTGCCATTGCCAGCACACCCTCCAAGCAAAGCCTCCAGTTCTTCTGCTACATCTGCAAGGCCAGCAGCAGCAGCCAGCAGCTCAGAGGAGTCCACCGAGAAAGGCCCTACAGGGCAGCCACAAGCAAGGGTCCAGCCTCAGACCCAGATGACAGCACCAAAGCAGACACAGACCCCGGATCGGCTGCCTGA
Peptide sequence:
MTAPKQTQTPDRLPEPPEVQMLPRIQPQALQIQTQPKLLRQAQTQTSPEHLAPQQDQVEPQVPSQPPWQLQPRETDPPNQAQAQTQPQPLWQAQSQKQAQTQAHPQVPTQAQSQEQTSEKTQDQPQTWPQGSVPPPEQASGPACATEPQLSSHAAEAGSDPDKALPEPVSAQSSEDRSREASAGGLDLGECEKRAGEMLGMWGAGSSLKVTILQSSNSRAFNTTPLTSGPRPGDSTSATPAIASTPSKQSLQFFCYICKASSSSQQLRGVHRERPYRAATSKGPASDPDDSTKADTDPGSAA
IRESfinder result
IRESfinder score
0.403990468
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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