top of page
mmu_circCyth3_304
Basic information of circular RNA
PanCircBase ID:
mmu_circCyth3_304
mm39_Chr. Position ID:
chr5|143692838|143693304|+
Gene name:
Cyth3
Transcript:
ENSMUST00000116456.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
10,11,12
Exon/intron offsets:
0,155,311
Genomic length:
466
Exon/intron sizes in nt:
77,72,155
Flanking exon/introns:
chr5:143688680-143692838|chr5:143693304-143693587
Splice length:
304
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGGGTCGTGTGAAGACCTGGAAACGGCGCTGGTTCATCCTCACAGATAACTGCCTCTACTACTTTGAGTACACCACGGACAAGGAGCCCAGGGGCATCATCCCCCTGGAGAACCTCAGCATCAGGGAGGTGGAGGACCCCCGGAAGCCGAACTGCTTTGAGCTGTATAACCCCAGTCACAAAGGTCAAGTCATCAAGGCCTGCAAGACGGAGGCCGATGGCCGTGTGGTGGAGGGCAACCACGTTGTGTACCGGATCTCTGCCCCCAGCCCGGAGGAAAAGGAGGAGTGGATGAAGTCCATCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCACGTTGTGTACCGGATC
60.04
GCTCCTTGTCCGTGGTGTAC
60.67
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCACGTTGTGTACCGGATC
60.04
CCTTGTCCGTGGTGTACTCA
59.32
151
PCR template sequence:
AGACGGAGGCCGATGGCCGTGTGGTGGAGGGCAACCACGTTGTGTACCGGATCTCTGCCCCCAGCCCGGAGGAAAAGGAGGAGTGGATGAAGTCCATCAAGGGGTCGTGTGAAGACCTGGAAACGGCGCTGGTTCATCCTCACAGATAACTGCCTCTACTACTTTGAGTACACCACGGACAAGGAGCCCAGGGGCATCAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-let-7b-5p(1), mmu-miR-431-5p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAAGTCCATCAAGGGGTCGTGTGAA
siRNA sets
TCACACGACCCCTTGATGG, CACACGACCCCTTGATGGA, TTCACACGACCCCTTGATG
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
0.332457653
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page