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mmu_ciCcz1_373
Basic information of circular RNA
PanCircBase ID:
mmu_ciCcz1_373
mm39_Chr. Position ID:
chr5|143947896|143948269|-
Gene name:
Ccz1
Transcript:
ENSMUST00000031621.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
373
Exon/intron sizes in nt:
373
Flanking exon/introns:
chr5:143947896-143948269
Splice length:
373
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAATGTGCAGTTTCTTATCCTGTGCTCTTAGGATGCTCCTGGAGATGTCACATAACATGCATTTAACCTAAGTAGCTTTAGGAGCCTTCTTGGGCTTCATAGAAAGGTTTTATGTTTATTGCTTACTTTCACATAATCCTCTAAAAATACTTCAGTGCCTGTCTTATTGATACCTTCCACTGGTCACCTGTGTATAATATAAAGCCCTTCTAAAAGAGGCTTATTGGTTTGTAAATTTGAATTTAAATACCTGTGATTTCAGCGTACAGCTACCGTAGGACCAAGTTTATAGTAATCATGAGCCTTGGCCAAGAGTGGTCCTGTTGCTGTGCCTGGGGCCCGGTGAGATGCCTGCTGTTTTCTTGTTTGTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATCATGAGCCTTGGCCAAGA
59.99
GCATGTTATGTGACATCTCCAGG
59.44
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTAATCATGAGCCTTGGCCA
59.43
TGTTATGTGACATCTCCAGGAGC
60.12
140
PCR template sequence:
CCGTAGGACCAAGTTTATAGTAATCATGAGCCTTGGCCAAGAGTGGTCCTGTTGCTGTGCCTGGGGCCCGGTGAGATGCCTGCTGTTTTCTTGTTTGTAGGTAATGTGCAGTTTCTTATCCTGTGCTCTTAGGATGCTCCTGGAGATGTCACATAACATGCATTTAACCTAAGTAGCTTTAGGAGCCTTCTTGGGCTTCA
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-214-3p(1), mmu-miR-127-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTTGTTTGTAGGTAATGTGCAGTT
siRNA sets
AACTGCACATTACCTACAA, ACATTACCTACAAACAAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.855178769
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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