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mmu_ciRap1gap2_698
Basic information of circular RNA
PanCircBase ID:
mmu_ciRap1gap2_698
mm39_Chr. Position ID:
chr11|74283172|74283870|-
Gene name:
Rap1gap2
Transcript:
ENSMUST00000102521.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
21
Exon/intron offsets:
0
Genomic length:
698
Exon/intron sizes in nt:
698
Flanking exon/introns:
chr11:74283172-74283870
Splice length:
698
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCGAGTCTCAGTCAACCAGAGAACAGCACTCTGAGGCTGTCTTAGTCAGGGTTTCTATTCCTGCACAAACATCAGGACCAAGAAGCAAGTTGGGGAGGAAAGGGTTTATTCAGCTTACACTTTCCGCATTGCTGTTCATCACCAAAGGAAGTCAGGACTGGAACTCAAGCAGGTCAGGAAGCAGGAGCTGATACAGAGGCCACAGAAGGATTTTACTTACCTGCTTGCTTCCCCTGGCTTGCTCAGCTTGTTTTCTTATAGAACCCAAGGCTACCATCCCAGGGATGGCACCACCCACAAGGGGCCCTCCCACCCTTGATCACTAATGAGAAAATGCCACACAAAACACCCAGTACAGGGGCCTAGCTGGTCATACTCTGCTTTAAAAGAATACCATGGAGAAGGAGTGGCCTCTGCAGCTGTTGCTACCAAGAAGAGCACTGAGTCTCAGCAGAGAGCAGTGAGTCTCAGCAGAGAGCAGTGAGTCTCAGCAGAATGCTTGAGAGCTGTGGTGGAGGTTGCTTATGCCAGGGGGACACCAACTCGAAAGGAAAGAGGTCAGGGAAAGGCTGAAGTCATGGCTGATGCAGAAGAGCCGTAGAGGTTGGAGGCAGTGGCTTTCGTGATCCATCTCAAGACAGCTGTAGGGCTGCTGGGTATACACTGGCCATGCTCACCCAGTTTCTCTCCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTAGAGGTTGGAGGCAGTG
60.11
AGCCTCAGAGTGCTGTTCTC
59.39
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCTGGGTATACACTGGCC
60.18
TCCCCAACTTGCTTCTTGGT
59.44
145
PCR template sequence:
GCCGTAGAGGTTGGAGGCAGTGGCTTTCGTGATCCATCTCAAGACAGCTGTAGGGCTGCTGGGTATACACTGGCCATGCTCACCCAGTTTCTCTCCTCAGGTAAGCGAGTCTCAGTCAACCAGAGAACAGCACTCTGAGGCTGTCTTAGTCAGGGTTTCTATTCCTGCACAAACATCAGGACCAAGAAGCAAGTTGGGGA
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-9-5p(1), mmu-miR-298-5p(1), mmu-miR-217-5p(1), mmu-miR-185-5p(1), mmu-miR-324-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TTTCTCTCCTCAGGTAAGCGAGTCTC
siRNA sets
NA
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
0.544373768
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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