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mmu_circRap1gap2_681
Basic information of circular RNA
PanCircBase ID:
mmu_circRap1gap2_681
mm39_Chr. Position ID:
chr11|74296548|74307158|-
Gene name:
Rap1gap2
Transcript:
ENSMUST00000102521.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
17,16,15,14,13,12
Exon/intron offsets:
0,1588,2165,6574,8668,10509
Genomic length:
10610
Exon/intron sizes in nt:
1,35,87,72,15,61,30,100
Flanking exon/introns:
chr11:74288320-74296548|chr11:74307158-74313255
Splice length:
681
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ACCCTGGAGGAGGAGCTATTTGGGAATAATGAGGAGAGCCCAGCTTTCAAGGAGTTTTTGGATCTCCTGGGAGACACCATCACACTGCAGGATTTCAAAGGTTTCCGAGGAGGCCTGGATGTGACCCACGGACAGACAGGGGTGGAGTCGGTGTACACCACTTTCCGGGACCGGGAGATCATGTTCCATGTGTCTACCAAGCTGCCCTTTACGGATGGTGACACCCAGCAGCTGCAGAGAAAGCGGCATATTGGGAATGATATCGTGGCCATCATCTTTCAAGAAGAAAATACACCGTTTGTCCCAGATATGATCGCATCAAACTTCTTACATGCCTACATTGTCGTTCAGGCTGATAACCCCGGCACAGAGACCCCATCCTACAAGGTATCAGTCACTGCTAGGGAAGATGTGCCTGCCTTTGGTCCCCCTCTGCCAAGCCCGCCTGTTTTCCAGAAGGGCGCAGAATTCCGGGAGTTTCTGCTCACCAAGCTCACGAACGCAGAGAATGCTTGCTGCAAGTCGGACAAGTTCGCCAAGCTGGAGGACCGGACCCGGGCTGCTCTCCTGGACAACCTTCATGATGAACTCCACACACACACTCAGGTCATGCTAGGCATGGGCCCGGAGGAGGACAAGTTCGAGAATGGGGGCCATGGAGGATTCCTGGAATCTTTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGAGGAGGACAAGTTCGAG
59.83
TGCAGTGTGATGGTGTCTCC
59.96
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGAGGAGGACAAGTTCGAG
59.83
TCCTGCAGTGTGATGGTGTC
59.96
148
PCR template sequence:
TGATGAACTCCACACACACACTCAGGTCATGCTAGGCATGGGCCCGGAGGAGGACAAGTTCGAGAATGGGGGCCATGGAGGATTCCTGGAATCTTTTAAGACCCTGGAGGAGGAGCTATTTGGGAATAATGAGGAGAGCCCAGCTTTCAAGGAGTTTTTGGATCTCCTGGGAGACACCATCACACTGCAGGATTTCAAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-320-3p(1), mmu-miR-339-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAATCTTTTAAGACCCTGGAGGAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRAP1GAP2_681_ORF_1
1.202
0.43142414
0.999293129
1182
ORF sequence:
ATGTTCCATGTGTCTACCAAGCTGCCCTTTACGGATGGTGACACCCAGCAGCTGCAGAGAAAGCGGCATATTGGGAATGATATCGTGGCCATCATCTTTCAAGAAGAAAATACACCGTTTGTCCCAGATATGATCGCATCAAACTTCTTACATGCCTACATTGTCGTTCAGGCTGATAACCCCGGCACAGAGACCCCATCCTACAAGGTATCAGTCACTGCTAGGGAAGATGTGCCTGCCTTTGGTCCCCCTCTGCCAAGCCCGCCTGTTTTCCAGAAGGGCGCAGAATTCCGGGAGTTTCTGCTCACCAAGCTCACGAACGCAGAGAATGCTTGCTGCAAGTCGGACAAGTTCGCCAAGCTGGAGGACCGGACCCGGGCTGCTCTCCTGGACAACCTTCATGATGAACTCCACACACACACTCAGGTCATGCTAGGCATGGGCCCGGAGGAGGACAAGTTCGAGAATGGGGGCCATGGAGGATTCCTGGAATCTTTTAAGACCCTGGAGGAGGAGCTATTTGGGAATAATGAGGAGAGCCCAGCTTTCAAGGAGTTTTTGGATCTCCTGGGAGACACCATCACACTGCAGGATTTCAAAGGTTTCCGAGGAGGCCTGGATGTGACCCACGGACAGACAGGGGTGGAGTCGGTGTACACCACTTTCCGGGACCGGGAGATCATGTTCCATGTGTCTACCAAGCTGCCCTTTACGGATGGTGACACCCAGCAGCTGCAGAGAAAGCGGCATATTGGGAATGATATCGTGGCCATCATCTTTCAAGAAGAAAATACACCGTTTGTCCCAGATATGATCGCATCAAACTTCTTACATGCCTACATTGTCGTTCAGGCTGATAACCCCGGCACAGAGACCCCATCCTACAAGGTATCAGTCACTGCTAGGGAAGATGTGCCTGCCTTTGGTCCCCCTCTGCCAAGCCCGCCTGTTTTCCAGAAGGGCGCAGAATTCCGGGAGTTTCTGCTCACCAAGCTCACGAACGCAGAGAATGCTTGCTGCAAGTCGGACAAGTTCGCCAAGCTGGAGGACCGGACCCGGGCTGCTCTCCTGGACAACCTTCATGATGAACTCCACACACACACTCAGGTCATGCTAGGCATGGGCCCGGAGGAGGACAAGTTCGAGAATGGGGGCCATGGAGGATTCCTGGAATCTTTTAAG
Peptide sequence:
MFHVSTKLPFTDGDTQQLQRKRHIGNDIVAIIFQEENTPFVPDMIASNFLHAYIVVQADNPGTETPSYKVSVTAREDVPAFGPPLPSPPVFQKGAEFREFLLTKLTNAENACCKSDKFAKLEDRTRAALLDNLHDELHTHTQVMLGMGPEEDKFENGGHGGFLESFKTLEEELFGNNEESPAFKEFLDLLGDTITLQDFKGFRGGLDVTHGQTGVESVYTTFRDREIMFHVSTKLPFTDGDTQQLQRKRHIGNDIVAIIFQEENTPFVPDMIASNFLHAYIVVQADNPGTETPSYKVSVTAREDVPAFGPPLPSPPVFQKGAEFREFLLTKLTNAENACCKSDKFAKLEDRTRAALLDNLHDELHTHTQVMLGMGPEEDKFENGGHGGFLESFK
IRESfinder result
IRESfinder score
0.461833273
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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