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mmu_circCcz1_578
Basic information of circular RNA
PanCircBase ID:
mmu_circCcz1_578
mm39_Chr. Position ID:
chr5|143940860|143949909|-
Gene name:
Ccz1
Transcript:
ENSMUST00000031621.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,5160,6988,7409,8760,8951
Genomic length:
9049
Exon/intron sizes in nt:
176,84,48,78,94,98
Flanking exon/introns:
chr5:143938276-143940860|chr5:143949909-143951516
Splice length:
578
Other database IDs:
circAtlas: mmu-Ccz1_0022
Human Ortholog IDs:
Mature spliced Sequence:
GAAGAAAATAAAATTCTGTTTTACCATCCAAATGAAGTAGAAAAGAATGAAAAAATTAGAAATGTTGGATTATGTGAAGCAATTGTACAGTTTACAAGGACTTTTAGCCCATCGAAACCTGCAAAATCTTTACACACACAGAAGAACAGACAGTTCTTCAATGAACCAGAAGAAAATTTCTGGATGGTTATGGTTGTTCGGAATCCTATCATCGAGAAGCAAAGTAAAGATGGCAAGGCGGTAGTGGAGTACCAAGAGGAGGAGCTGTTGGACAAGGTGTACAGCTCAGTGCTGCAGCAGTGCTACAGCATGTACAAGCTTTTCAATGGGACGTTTCTGAAAGCCATGGAAGATGGAGGCGTCAAGCTCCTAAAGGAAAGATTAGAGAAATTCTTCCATCGGTATTTGCAGACACTACATTTGCAGTCATGTGACCTACTTGATATTTTTGGTGGAATCAGCTTCTTCCCATTGGATAAAATGACTTACTTGAAAATCCAGTCCTTTATTAACCGAATGGAAGAAAGCCTAAGTGTAGTCAAATATACAGCATTCCTCTACAATGACCAACTTATCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACCGAATGGAAGAAAGCCT
57.41
ACAATTGCTTCACATAATCCAACA
57.66
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACCGAATGGAAGAAAGCCT
57.41
TCCTTGTAAACTGTACAATTGCTTCA
59.46
168
PCR template sequence:
AAATGACTTACTTGAAAATCCAGTCCTTTATTAACCGAATGGAAGAAAGCCTAAGTGTAGTCAAATATACAGCATTCCTCTACAATGACCAACTTATCTGGAAGAAAATAAAATTCTGTTTTACCATCCAAATGAAGTAGAAAAGAATGAAAAAATTAGAAATGTTGGATTATGTGAAGCAATTGTACAGTTTACAAGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-26a-5p(1), mmu-miR-26b-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCAACTTATCTGGAAGAAAATAAAA
siRNA sets
TATTTTCTTCCAGATAAGT, TTTTCTTCCAGATAAGTTG, TTTTATTTTCTTCCAGATA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCZ1_578_ORF_1
1.1893
0.20979194
0.718777322
435
ORF sequence:
ATGGTTATGGTTGTTCGGAATCCTATCATCGAGAAGCAAAGTAAAGATGGCAAGGCGGTAGTGGAGTACCAAGAGGAGGAGCTGTTGGACAAGGTGTACAGCTCAGTGCTGCAGCAGTGCTACAGCATGTACAAGCTTTTCAATGGGACGTTTCTGAAAGCCATGGAAGATGGAGGCGTCAAGCTCCTAAAGGAAAGATTAGAGAAATTCTTCCATCGGTATTTGCAGACACTACATTTGCAGTCATGTGACCTACTTGATATTTTTGGTGGAATCAGCTTCTTCCCATTGGATAAAATGACTTACTTGAAAATCCAGTCCTTTATTAACCGAATGGAAGAAAGCCTAAGTGTAGTCAAATATACAGCATTCCTCTACAATGACCAACTTATCTGGAAGAAAATAAAATTCTGTTTTACCATCCAAATGAAGTAG
Peptide sequence:
MVMVVRNPIIEKQSKDGKAVVEYQEEELLDKVYSSVLQQCYSMYKLFNGTFLKAMEDGGVKLLKERLEKFFHRYLQTLHLQSCDLLDIFGGISFFPLDKMTYLKIQSFINRMEESLSVVKYTAFLYNDQLIWKKIKFCFTIQMK
IRESfinder result
IRESfinder score
0.5915701
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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