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mmu_ciGbf1_473
Basic information of circular RNA
PanCircBase ID:
mmu_ciGbf1_473
mm39_Chr. Position ID:
chr19|46267874|46268347|+
Gene name:
Gbf1
Transcript:
ENSMUST00000026254.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
30
Exon/intron offsets:
0
Genomic length:
473
Exon/intron sizes in nt:
473
Flanking exon/introns:
chr19:46267874-46268350
Splice length:
473
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGCCCTTTCCCAGGGAAATAAGCAGTTAGGACCCAGCAGCTGCTATGGGAAAACAAAACACAGGTTATTACCACTCAGCAAATTAAACACACCTGGTTTCTGCCATCTGCTTCTAGATCTTCCTGTGCCTGTTAGCTACCCCATGGGCTAGATAGCATAAAGGCAAGTAGGCACTGCAAGGAGACTATCAAGCCAAGTTTCTACTGTCAGGAAGACCATGTTACAGAACCATTTGTCCTTACGCCACCACCTTTCCCTAATAACTGCTACTAGTTGCTATTAGAAGCCCAAATTAGCTTCTTGCCTTATTTAGTCAGGAAAGATGTTGTCCAGACCTCTACCTTTTGGTGATTGGGCCAAAGTAAGCCAGACATGAGAGAAGACGCTAGGCCTCAGCACCTCTCCTCTGAGTCTGTTGTCCTGTTCCATGGCCCATCTCAGCTCTTACTCTGCCTTTTCCCTGCCTGGCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGAAGACGCTAGGCCTCA
60.03
CAGCTGCTGGGTCCTAACTG
60.39
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGAGAAGACGCTAGGCCT
60.03
CAGCTGCTGGGTCCTAACTG
60.39
142
PCR template sequence:
ACATGAGAGAAGACGCTAGGCCTCAGCACCTCTCCTCTGAGTCTGTTGTCCTGTTCCATGGCCCATCTCAGCTCTTACTCTGCCTTTTCCCTGCCTGGCTGTATGCCCTTTCCCAGGGAAATAAGCAGTTAGGACCCAGCAGCTGCTATGGGAAAACAAAACACAGGTTATTACCACTCAGCAAATTAAACACACCTGGT
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-31-5p(1), mmu-miR-709(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCCTGCCTGGCTGTATGCCCTTTCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIGBF1_473_ORF_1
0.4817
-0.098913691
0.049483304
252
ORF sequence:
ATGAGAGAAGACGCTAGGCCTCAGCACCTCTCCTCTGAGTCTGTTGTCCTGTTCCATGGCCCATCTCAGCTCTTACTCTGCCTTTTCCCTGCCTGGCTGTATGCCCTTTCCCAGGGAAATAAGCAGTTAGGACCCAGCAGCTGCTATGGGAAAACAAAACACAGGTTATTACCACTCAGCAAATTAAACACACCTGGTTTCTGCCATCTGCTTCTAGATCTTCCTGTGCCTGTTAGCTACCCCATGGGCTAG
Peptide sequence:
MREDARPQHLSSESVVLFHGPSQLLLCLFPAWLYALSQGNKQLGPSSCYGKTKHRLLPLSKLNTPGFCHLLLDLPVPVSYPMG
IRESfinder result
IRESfinder score
0.646056017
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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