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mmu_ciGmfb_529
Basic information of circular RNA
PanCircBase ID:
mmu_ciGmfb_529
mm39_Chr. Position ID:
chr14|47053105|47053634|-
Gene name:
Gmfb
Transcript:
ENSMUST00000079314.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
529
Exon/intron sizes in nt:
529
Flanking exon/introns:
chr14:47053105-47053634
Splice length:
529
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTGTTCAATGAGCTACATACAATTTTATAGTTAAGCCATTATTGTTGTCAAACAATGCTGTCAGTTACAAGTACTAAAACAAGTTCTGGACCTTCTTAAATGCATACTAATTATGCATGAAAACATGAGCTAATTATTGGTTCTACATTGTCTTGCTGATTTAACTGCCTTCCTTAAGCATTAATGAGATGCAGTGTGGCAGGTAGGGGTTCGAGCTCTCCTAAAAGCAGAGGCAGCTCCCTTCTTACAAGCAGTGCATAGAGTGGAAGAAGACTGAAGCCCGCCCGCCACGTGAGCGCGGGACTGGAGTGGAATTAATGCTCTTTGAGGTTTTGCTATGTCATTCAGTCACCCTGTGTCTCTTGACACTTGGAAGATAAGCATAGAAGAAACACTGCCCTTCATACCCATGTGTTGTTGAAAGTAGAAGTAATGTGATAATGAGCCATAGCTCTTAGCAGAATGGGGTGCAGTGGACCTTGGGTAAGGACATGCTTGCTTCAGAGTTGTCTTTTCTCTGGTGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAGCAGAATGGGGTGCAGTG
60.04
AACTGACAGCATTGTTTGACAACA
60.08
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTAGCAGAATGGGGTGCAGT
59.3
ACTGACAGCATTGTTTGACAACA
59.56
140
PCR template sequence:
AAGTAATGTGATAATGAGCCATAGCTCTTAGCAGAATGGGGTGCAGTGGACCTTGGGTAAGGACATGCTTGCTTCAGAGTTGTCTTTTCTCTGGTGCCAGGTTTGTTCAATGAGCTACATACAATTTTATAGTTAAGCCATTATTGTTGTCAAACAATGCTGTCAGTTACAAGTACTAAAACAAGTTCTGGACCTTCTTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-34a-5p(1), mmu-miR-297a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTCTGGTGCCAGGTTTGTTCAATGA
siRNA sets
ATTGAACAAACCTGGCACC,TTGAACAAACCTGGCACCA,TCATTGAACAAACCTGGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIGMFB_529_ORF_5
0.801
-0.592984454
0.003540893
78
ORF sequence:
ATGGGGTGCAGTGGACCTTGGGTAAGGACATGCTTGCTTCAGAGTTGTCTTTTCTCTGGTGCCAGGTTTGTTCAATGA
Peptide sequence:
MGCSGPWVRTCLLQSCLFSGARFVQ
IRESfinder result
IRESfinder score
0.796316513
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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