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mmu_ciGm49673_836
Basic information of circular RNA
PanCircBase ID:
mmu_ciGm49673_836
mm39_Chr. Position ID:
chr17|8360513|8361349|-
Gene name:
Gm49673
Transcript:
ENSMUST00000232307.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
836
Exon/intron sizes in nt:
836
Flanking exon/introns:
chr17:8360485-8361349
Splice length:
836
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCAAGCATCTAATACAGTAAAACTAATGAAGCAGTCTGGGAAAACTAGCTTGAGTCCAGTCGCCATAAGTAGAACTGTTAAATTTGGTAGAAGTTTCTCCAGCTGACCAGATTCATATGAATATATTCATGTACATATGAATATATTTCCTTTTATGTATATGGTATTTTCCTTGCATGTATGTTTGTACATCATGTGTGTACCAGGTACTTGCAGAAGGCCAGAAGTGGGCATCATCCCTGGGATTGGCGTTACAGGCAGTTGTGAACCACCATGTGGGTGCTGGGAATTTAACACAGGTCCTCTGCTTCCAGAGTAGCCCGTGCTCTTAACTACTGAGACTCTCCATCCCCTGAGTATCATAGATAAATAAATACTTAAAATGTTAGATCAATAGATAGACAAATAAATGATTTTACACACTTTACAAGCAGCCAACTCCCCTCCACCATGTCTGTCTGCATTCTCTTTCATTCTTTGTCGATGCGTACACCTGTAGTATCGGAGTATGCATATTACCTTGCCACTGTTAGAGTGGATATGGCCCATACACCTTCAGGTTCTCAGGTAGGAAAGAGCTGAGACTGGGCTCTATCCAGAGCTATTCCCTGTTTCTTCTGCTGACAACCCAGCTTGTCTGTTCTGCTCCTGGCCTTGTTTGACTCTACCAGTTCCTTTTTCAGAACAAAGTCAAAACTATTTGCCCAGAACCGTTGTTTGCTGACTGCCTAGTGTGGAGTGAGGAGGTCCTGATCAGAATTTCTGTTTTATGCAGATTTCGATGAAATTACTTCCTAGTGCCTTATATAAAACATCCTAACTGAGACTATTGTTTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGGTCCTGATCAGAATTTCTGT
60.08
TATGGCGACTGGACTCAAGC
59.82
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGGTCCTGATCAGAATTTCTGT
60.08
GGCGACTGGACTCAAGCTAG
60.18
158
PCR template sequence:
GAGTGAGGAGGTCCTGATCAGAATTTCTGTTTTATGCAGATTTCGATGAAATTACTTCCTAGTGCCTTATATAAAACATCCTAACTGAGACTATTGTTTCGCAAGCATCTAATACAGTAAAACTAATGAAGCAGTCTGGGAAAACTAGCTTGAGTCCAGTCGCCATAAGTAGAACTGTTAAATTTGGTAGAAGTTTCTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-214-3p(1), mmu-miR-466d-3p(1), mmu-miR-690(1), mmu-miR-300-3p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGACTATTGTTTCGCAAGCATCTAAT
siRNA sets
ATTAGATGCTTGCGAAACA, ATGCTTGCGAAACAATAGT, TTAGATGCTTGCGAAACAA
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
0.854067241
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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