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mmu_ciMap4_1104
Basic information of circular RNA
PanCircBase ID:
mmu_ciMap4_1104
mm39_Chr. Position ID:
chr9|109892191|109893295|+
Gene name:
Map4
Transcript:
ENSMUST00000198185.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
1104
Exon/intron sizes in nt:
1104
Flanking exon/introns:
chr9:109892191-109896552
Splice length:
1104
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGCGCTACAGTGGATGATGGTTTCCCTTTTCTGTGATTTTAAACCTTCTGCTGCTATTGCTTGAATCATGAGTGCAGTGTCTTTTTTTCTGAGCTGTCTTGTCTTTCTTCAAATTTAGATGCCCTTAGAAAATAGATCCTATATTTTCATTTGGCCTAAACCAAATTCATTCATTCAAAATCCTCTGCCTGCACTTTTATAGTATATCTGTGTAAAATGTTCATTAAATATTTGTTTTCTGTGCTAGAGATTGAACCTAGGACCTTATACTTCTTAGGCAAGTGCTCTACCACCGTGCCCATGGCTTTTTCAGACAGGATGTTACTATGTCTACCATTGTCAATTTATAAATGACTTACCTTTTGCTTACTAACAGCAAGAAGCAATTGTAGACTTACCCTGAAACCTGTTCGAGAAAAAAAATGAATGAAGGTTTCTTAGACAGACCATGGCTTCAGAAACTTTCTCTTGTACTTGGTAAACACACAGGTACCACATTTTAGGGTATAGTTATGCTGTCTTGTGAAGACATAGGAAAGAAAAGTAGGGTGTGGTTGGTGCCTGTACGTTTAATCTCAGCAGTTTGGCAGCTGAGGCTAGAGGATCCTGAGTTGTGTGTCAGCCTGGGTAACTTAAGATCCTATTTTTTTAAAAAAGAAATCCAGTCAGTAATAATTTAATCATTTACTGATACATTTATTTATAAAATTCTTACAGCTGCCAAAAGTTAATGACAAAGATATTATTAAAATAAATGATTTAAAAATCAAACCATTGGAATTTGTGGCGCTATGATTAAGAAAGCATTTCCACAGACATGGGGATATAGTTCAGAAGTACAGCATGTGCTTAGCATGCCTAAGATCTTGTGTCTAAGAATAAAGAGAATTACAGTATCTTAAACTTCATCTTAGTATCACTTTACTGTCTACTGAGCTCAGAAGAAAGGAATGCTTATTTTCAGTTGCATCAATCCTCATTGCTTATAATTTTACTTTGAATTGTGCAATTTATACATTTTTATTTGTTTTTATTCTTGTCTGTGTGTTTTATGTTCTTTAAATTTTTTAAATTAAAAATTAAACAACCATCAACTTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTGTCTGTGTGTTTTATGTTCT
56.75
CACTGCACTCATGATTCAAGCA
59.51
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTGTCTGTGTGTTTTATGTTCT
56.75
ACACTGCACTCATGATTCAAGC
59.51
150
PCR template sequence:
TTGTGCAATTTATACATTTTTATTTGTTTTTATTCTTGTCTGTGTGTTTTATGTTCTTTAAATTTTTTAAATTAAAAATTAAACAACCATCAACTTAAAGGTAGGCGCTACAGTGGATGATGGTTTCCCTTTTCTGTGATTTTAAACCTTCTGCTGCTATTGCTTGAATCATGAGTGCAGTGTCTTTTTTTCTGAGCTGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-106a-5p(1), mmu-miR-17-5p(1), mmu-miR-32-5p(1), mmu-miR-205-5p(1), mmu-miR-15b-5p(1), mmu-miR-106b-5p(1), mmu-miR-363-3p(1), mmu-miR-22-3p(1), mmu-miR-182-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-697(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCAACTTAAAGGTAGGCGCTACAG
siRNA sets
TAGCGCCTACCTTTAAGTT
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
0.90923768
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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