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mmu_circZbtb20_171
Basic information of circular RNA
PanCircBase ID:
mmu_circZbtb20_171
mm39_Chr. Position ID:
chr16|42845300|43013901|+
Gene name:
Zbtb20
Transcript:
ENSMUST00000151244.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,121959,168527
Genomic length:
168601
Exon/intron sizes in nt:
50,47,74
Flanking exon/introns:
chr16:42728084-42845300|chr16:43013901-43122931
Splice length:
171
Other database IDs:
CIRCpedia: MMU_CIRCpedia_215736, circAtlas: mmu-Zbtb20_0091
Human Ortholog IDs:
Mature spliced Sequence:
ATAACTGAATGGAGTGTTTGAATTGCGCTTTGCGACTCTGAAGGCTGAAGGAATGGCTGTTTGATATTGGAAAACCAGTTGGTGTGCTCTTCCTTGGACTGCCTGAAGTTACATTTTGAGACTGAAATCACTGCACCTTAAAAACAAAAGATTGGGCTGCACTGTGTTCCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTTCCTTGGACTGCCTGA
59.02
CTTCAGCCTTCAGAGTCGCA
60.04
135
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCCTTGGACTGCCTGAAGT
59.93
CTTCAGCCTTCAGAGTCGCA
60.04
133
PCR template sequence:
CTCTTCCTTGGACTGCCTGAAGTTACATTTTGAGACTGAAATCACTGCACCTTAAAAACAAAAGATTGGGCTGCACTGTGTTCCTATAACTGAATGGAGTGTTTGAATTGCGCTTTGCGACTCTGAAGGCTGAAGGAATGGCTGTTTGATATTGGAAAACCAGTTGGTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-18a-5p(1), mmu-miR-128-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCACTGTGTTCCTATAACTGAATGGA
siRNA sets
TTCAGTTATAGGAACACAG, ATTCAGTTATAGGAACACA, CAGTTATAGGAACACAGTG
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
0.692043268
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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