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mmu_ciTmem41b_571
Basic information of circular RNA
PanCircBase ID:
mmu_ciTmem41b_571
mm39_Chr. Position ID:
chr7|109578024|109578595|-
Gene name:
Tmem41b
Transcript:
ENSMUST00000094097.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
571
Exon/intron sizes in nt:
571
Flanking exon/introns:
chr7:109578021-109578595
Splice length:
571
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTATGTGACATGAGTTTGGAGATGTGAAAACAAGTAGAGCATTGGGGATGGTAATGGCAGTCTAGCTCCGCCAGGCAGTCTCATGTTCGTTCATCAGCTTTCAAGACGGTGATGTTAGTGTGTTTCTGTTAAGTCCTGTTAGAGCTCTGAAGAGCTTGGGTTCCTAGAATGAGGGCACTATAGACTTACTTGCAGTTTATAGCCTTTCTTTCCTGTTGTATTTTGCAGGTCAGATGAACTTAAGATTGTGGGTGGACACAGTGAGTCCTTGGTCTGGGAATAGTGTCCATACATAGCTATAGTAGGGTATGGGAACGGCTCCTTATTTATTCTTAAGCTAAAGGCAGCAGTAATTACTGGGTATGGTCAAAAGTTGAATCACAAGTGCTAATTGATTTTAACGATCTTGTTTGAGTTAGTTTGAGAAAGGACTAGGTAGATCAAATGGGTTTTATTCTCTAAGTAAGACGTATCACATGGACGCCCTTGCCTAGCTCTAAGGGATAAGTAAATGCACAGACAGGAGTGAGATGGGAACGTACAGGGTGCATGTGACTTCTTGTTTTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCTTGCCTAGCTCTAAGG
59.89
ACGAACATGAGACTGCCTGG
60.04
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCCCTTGCCTAGCTCTAAG
60.25
ACGAACATGAGACTGCCTGG
60.04
180
PCR template sequence:
ACGTATCACATGGACGCCCTTGCCTAGCTCTAAGGGATAAGTAAATGCACAGACAGGAGTGAGATGGGAACGTACAGGGTGCATGTGACTTCTTGTTTTCGTAAGTATGTGACATGAGTTTGGAGATGTGAAAACAAGTAGAGCATTGGGGATGGTAATGGCAGTCTAGCTCCGCCAGGCAGTCTCATGTTCGTTCATCA
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-320-3p(1), mmu-miR-185-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTCTTGTTTTCGTAAGTATGTGAC
siRNA sets
ATACTTACGAAAACAAGAA,TCACATACTTACGAAAACA,CATACTTACGAAAACAAGA
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
0.765543545
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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