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mmu_circRap1gap2_1182
Basic information of circular RNA
PanCircBase ID:
mmu_circRap1gap2_1182
mm39_Chr. Position ID:
chr11|74279144|74303278|-
Gene name:
Rap1gap2
Transcript:
ENSMUST00000102521.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
24,23,22,21,20,19,18,17,16,15,14
Exon/intron offsets:
0,464,3901,4726,5050,7460,9038,17404,18992,19569,23978
Genomic length:
24134
Exon/intron sizes in nt:
39,77,12,71,18,11,41,10,00,00,00,00,00,000
Flanking exon/introns:
chr11:74278337-74279144|chr11:74303278-74305216
Splice length:
1182
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTGCAGAGAAAGCGGCATATTGGGAATGATATCGTGGCCATCATCTTTCAAGAAGAAAATACACCGTTTGTCCCAGATATGATCGCATCAAACTTCTTACATGCCTACATTGTCGTTCAGGCTGATAACCCCGGCACAGAGACCCCATCCTACAAGGTATCAGTCACTGCTAGGGAAGATGTGCCTGCCTTTGGTCCCCCTCTGCCAAGCCCGCCTGTTTTCCAGAAGGGCGCAGAATTCCGGGAGTTTCTGCTCACCAAGCTCACGAACGCAGAGAATGCTTGCTGCAAGTCGGACAAGTTCGCCAAGCTGGAGGACCGGACCCGGGCTGCTCTCCTGGACAACCTTCATGATGAACTCCACACACACACTCAGGTCATGCTAGGCATGGGCCCGGAGGAGGACAAGTTCGAGAATGGGGGCCATGGAGGATTCCTGGAATCTTTTAAGAGGGCCATCCGTGTGCGCAGCCATTCCATGGAGACCATGGTGGGTAGCCAGAGGAAGCTGCATGGCGGGAACCTCCCTGGCAGCCTCAGCGGGGGCATTGTCCACAACAGCATGGAGGTCACCAAGACCACCTTCTCGCCTCCAGTGGCCGCAGCAACCGCGAAGAACCAGTCACGGAGCCCCATCAAGCGGCGGTCGGGACTCTTCCCCCGCCTGCACTCGGGCTCTGAAGGCCAGGGAGACAGCCGGACACGATGTGACAGTGCCTCCAGCACCCCCAAAACCCCAGATGGCGGACACTCTTCTCAGGAGATAAAGTCTGAGACCTCGTCAAATCCCAGCTCTCCAGAAATTTGTCCCAACAAAGAGAAGCCCTTCATCAAGTTGAAGGAGAATGGCCGTGCCAACATCTCCCGCTCCTCCTCCAGCACCAGCAGCTTCAGCAGCACAGCAGGGGAGGGCGAGGCCATGGAGGAGTGTGACAGTGGGAGCAGCCAGCCATCCACAACCTCGCCCTTCAAGCAGGAGGTGTTTGCCTACAGCCCATCCCCGAGCAGCGAGAGCCCCAGCCTGGGGGCTGCCGCCACGCCCATCATCATGAGCCGGAGTCCCACAGATGCCAAAAGCAGAAACTCCCCGAGGTCCAACCTGAAATTCCGCTTTGATAAACTCAGCCATGCTAGCTCCAGTGCGGGTCACTAATGTGAAAGTGAAGACCTTCCCTTATCCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTCCAACCTGAAATTCCGC
59.47
TCTTGAAAGATGATGGCCACGA
60.03
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACTCAGCCATGCTAGCTCC
59.82
GCGATCATATCTGGGACAAACG
59.52
151
PCR template sequence:
CTCCCCGAGGTCCAACCTGAAATTCCGCTTTGATAAACTCAGCCATGCTAGCTCCAGTGCGGGTCACTAATGTGAAAGTGAAGACCTTCCCTTATCCAAGCTGCAGAGAAAGCGGCATATTGGGAATGATATCGTGGCCATCATCTTTCAAGAAGAAAATACACCGTTTGTCCCAGATATGATCGCATCAAACTTCTTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-328-3p(1), mmu-miR-298-5p(1), mmu-miR-138-5p(1), mmu-miR-96-5p(1), mmu-miR-370-3p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-207(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCCTTATCCAAGCTGCAGAGAAAGC
siRNA sets
CTGCAGCTTGGATAAGGGA, CTCTGCAGCTTGGATAAGG, TTTCTCTGCAGCTTGGATA
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
0.411259073
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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