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mmu_circMatn2_123
Basic information of circular RNA
PanCircBase ID:
mmu_circMatn2_123
mm39_Chr. Position ID:
chr15|34355708|34355831|+
Gene name:
Matn2
Transcript:
ENSMUST00000163455.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
123
Exon/intron sizes in nt:
123
Flanking exon/introns:
chr15:34345706-34355708|chr15:34355831-34378800
Splice length:
123
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CAGTCCACATGTGCAGCGTCTTGGAACACAACTGTGCCCACTTCTGCCTCAACACACCTGGCTCGTACATCTGCAAGTGCAAGCAAGGGTACATTCTCAGCACGGATCAGAAGACTTGCAGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGTACATCTGCAAGTGC
55.09
CCAGGTGTGTTGAGGCAGAA
60.18
122
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGTACATCTGCAAGTGC
55.09
AGGTGTGTTGAGGCAGAAGT
59.16
120
PCR template sequence:
TCGTACATCTGCAAGTGCAAGCAAGGGTACATTCTCAGCACGGATCAGAAGACTTGCAGAACAGTCCACATGTGCAGCGTCTTGGAACACAACTGTGCCCACTTCTGCCTCAACACACCTGG
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-709(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
AAGACTTGCAGAACAGTCCACATGTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMATN2_123_ORF_1
1.1526
0.221263134
0.379771328
237
ORF sequence:
ATGTGCAGCGTCTTGGAACACAACTGTGCCCACTTCTGCCTCAACACACCTGGCTCGTACATCTGCAAGTGCAAGCAAGGGTACATTCTCAGCACGGATCAGAAGACTTGCAGAACAGTCCACATGTGCAGCGTCTTGGAACACAACTGTGCCCACTTCTGCCTCAACACACCTGGCTCGTACATCTGCAAGTGCAAGCAAGGGTACATTCTCAGCACGGATCAGAAGACTTGCAGA
Peptide sequence:
MCSVLEHNCAHFCLNTPGSYICKCKQGYILSTDQKTCRTVHMCSVLEHNCAHFCLNTPGSYICKCKQGYILSTDQKTCR
IRESfinder result
IRESfinder score
0.482492149
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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