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mmu_circMap3k2_330
Basic information of circular RNA
PanCircBase ID:
mmu_circMap3k2_330
mm39_Chr. Position ID:
chr18|32324953|32333091|+
Gene name:
Map3k2
Transcript:
ENSMUST00000234611.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,4939,6750,8038
Genomic length:
8138
Exon/intron sizes in nt:
7,01,19,41,100
Flanking exon/introns:
chr18:32296603-32324953|chr18:32333091-32336078
Splice length:
330
Other database IDs:
CIRCpedia: MMU_CIRCpedia_16415, circAtlas: mmu-Map3k2_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGCAATAAAGAATGTTGATGGGAGAACCATTTTCCTAATTTTCAAATTATTGAGCTGGTCGCCATAATGGATGATCAGCAAGCTTTGAATTCAATCATGCAAGATTTGGCTGTCCTTCATAAGGCCAGTCGGCCAGCATTATCTTTACAAGAAACCAGGAAAGCAAAACCTTCATCACCAAAAAAACAGAATGATGTTCGAGTCAAATTTGAACATAGAGGAGAAAAAAGGATCCTGCAGGTTACTAGACCAGTTAAACTAGAAGACCTGAGATCTAAGTCTAAGATCGCCTTTGGGCAGTCTATGGATCTACACTATACCAACAATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGCAGGTTACTAGACCAGT
58.82
TGCTGATCATCCATTATGGCGA
59.96
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGCAGGTTACTAGACCAGT
60.23
TGCTGATCATCCATTATGGCGA
59.96
178
PCR template sequence:
GATCCTGCAGGTTACTAGACCAGTTAAACTAGAAGACCTGAGATCTAAGTCTAAGATCGCCTTTGGGCAGTCTATGGATCTACACTATACCAACAATGAGGGCAATAAAGAATGTTGATGGGAGAACCATTTTCCTAATTTTCAAATTATTGAGCTGGTCGCCATAATGGATGATCAGCAAGCTTTGAATTCAATCATGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-29b-1-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TACCAACAATGAGGGCAATAAAGAAT
siRNA sets
TTTATTGCCCTCATTGTTG, TTATTGCCCTCATTGTTGG, ATTCTTTATTGCCCTCATT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMAP3K2_330_ORF_1
0.9545
0.083633143
0.24851057
282
ORF sequence:
ATGGATGATCAGCAAGCTTTGAATTCAATCATGCAAGATTTGGCTGTCCTTCATAAGGCCAGTCGGCCAGCATTATCTTTACAAGAAACCAGGAAAGCAAAACCTTCATCACCAAAAAAACAGAATGATGTTCGAGTCAAATTTGAACATAGAGGAGAAAAAAGGATCCTGCAGGTTACTAGACCAGTTAAACTAGAAGACCTGAGATCTAAGTCTAAGATCGCCTTTGGGCAGTCTATGGATCTACACTATACCAACAATGAGGGCAATAAAGAATGTTGA
Peptide sequence:
MDDQQALNSIMQDLAVLHKASRPALSLQETRKAKPSSPKKQNDVRVKFEHRGEKRILQVTRPVKLEDLRSKSKIAFGQSMDLHYTNNEGNKEC
IRESfinder result
IRESfinder score
0.66692235
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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