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mmu_circGm11992_771
Basic information of circular RNA
PanCircBase ID:
mmu_circGm11992_771
mm39_Chr. Position ID:
chr11|9002693|9011386|+
Gene name:
Gm11992
Transcript:
ENSMUST00000043285.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,1516,3728,7217,8472
Genomic length:
8693
Exon/intron sizes in nt:
1,86,10,91,57,98,221
Flanking exon/introns:
chr11:8999200-9002693|chr11:9011386-9018334
Splice length:
771
Other database IDs:
circAtlas: mmu-Gm11992_0001
Human Ortholog IDs:
Mature spliced Sequence:
ACTGGTATTACCACCTACCTGTGAAGCGTTCTGAGAAGCCTGTGGGTGCCCCACCAGCATCCCAGATCCCAGGGCTCAGTGACTTGAGAGACTCCCCAAATGTGAATTTGCCCCGTGCTCGGAGGTACTGGATCAAAGAAACAGACTCGGAGTATGTGAAATTGGCTAAGCAAGGTGGCAGACCTGATTTGCTGAAGCACTTTGCCCCTGGAACCAGGCAAGGCTCCCCAGTAGCCTACTCCCTGCCAGACTGGTATATTCACCACAGCAAGCCTCCGACATCTCACCAGCGAGAAGTCCCCGTGGTCTCCATACCAGATTACATGGTGTATGAAGAATTCAACCCCGATCAGGCCAATGGTAGCTATGAGTCCAGACAAGGCCCCTTTGACTTTGACAGGAAAACAATTTGGCAAAGGGAGGCTGAGGAGCTTGAAAATGTGAAGAGAAAGGTGAAACTGCCAGCTATTAATTCCAAGAACCCCAGCAAAACGGGGACCCCAGTTAGCCACAAAGAGCCTGAAAGGAGCAGACTGTCGTTGCCTCCTATGCCTGGTCAAAAAAACAGTTCACCCACCAACTTTTCCAAACTTATCAGCAATGGCTACAAGGACGAGTGGTTACAGCAGCAGAAGGCTGAAGCTGACAGGAGGACTCCAAAGACCTCCAGGGCATCCGTGTCCTCCAAGTCCACAGAGGACTCTAAAAGCAACCAGGACACAGAAACGCCCGAAAATCCAGAGACCCCTGAAGGCTCTGAGAAAACTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAACCAGGACACAGAAACGC
59.69
CTCAAGTCACTGAGCCCTGG
60.04
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAACCAGGACACAGAAACG
59.69
CTCAAGTCACTGAGCCCTGG
60.04
151
PCR template sequence:
GCATCCGTGTCCTCCAAGTCCACAGAGGACTCTAAAAGCAACCAGGACACAGAAACGCCCGAAAATCCAGAGACCCCTGAAGGCTCTGAGAAAACTCCAGACTGGTATTACCACCTACCTGTGAAGCGTTCTGAGAAGCCTGTGGGTGCCCCACCAGCATCCCAGATCCCAGGGCTCAGTGACTTGAGAGACTCCCCAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(2), mmu-miR-23b-3p(1), mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-106b-5p(1), mmu-miR-23a-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GAGAAAACTCCAGACTGGTATTACCA
siRNA sets
ATACCAGTCTGGAGTTTTC, AATACCAGTCTGGAGTTTT, TAATACCAGTCTGGAGTTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGM11992_771_ORF_1
0.9846
0.284503908
0.998505617
1218
ORF sequence:
ATGGTGTATGAAGAATTCAACCCCGATCAGGCCAATGGTAGCTATGAGTCCAGACAAGGCCCCTTTGACTTTGACAGGAAAACAATTTGGCAAAGGGAGGCTGAGGAGCTTGAAAATGTGAAGAGAAAGGTGAAACTGCCAGCTATTAATTCCAAGAACCCCAGCAAAACGGGGACCCCAGTTAGCCACAAAGAGCCTGAAAGGAGCAGACTGTCGTTGCCTCCTATGCCTGGTCAAAAAAACAGTTCACCCACCAACTTTTCCAAACTTATCAGCAATGGCTACAAGGACGAGTGGTTACAGCAGCAGAAGGCTGAAGCTGACAGGAGGACTCCAAAGACCTCCAGGGCATCCGTGTCCTCCAAGTCCACAGAGGACTCTAAAAGCAACCAGGACACAGAAACGCCCGAAAATCCAGAGACCCCTGAAGGCTCTGAGAAAACTCCAGACTGGTATTACCACCTACCTGTGAAGCGTTCTGAGAAGCCTGTGGGTGCCCCACCAGCATCCCAGATCCCAGGGCTCAGTGACTTGAGAGACTCCCCAAATGTGAATTTGCCCCGTGCTCGGAGGTACTGGATCAAAGAAACAGACTCGGAGTATGTGAAATTGGCTAAGCAAGGTGGCAGACCTGATTTGCTGAAGCACTTTGCCCCTGGAACCAGGCAAGGCTCCCCAGTAGCCTACTCCCTGCCAGACTGGTATATTCACCACAGCAAGCCTCCGACATCTCACCAGCGAGAAGTCCCCGTGGTCTCCATACCAGATTACATGGTGTATGAAGAATTCAACCCCGATCAGGCCAATGGTAGCTATGAGTCCAGACAAGGCCCCTTTGACTTTGACAGGAAAACAATTTGGCAAAGGGAGGCTGAGGAGCTTGAAAATGTGAAGAGAAAGGTGAAACTGCCAGCTATTAATTCCAAGAACCCCAGCAAAACGGGGACCCCAGTTAGCCACAAAGAGCCTGAAAGGAGCAGACTGTCGTTGCCTCCTATGCCTGGTCAAAAAAACAGTTCACCCACCAACTTTTCCAAACTTATCAGCAATGGCTACAAGGACGAGTGGTTACAGCAGCAGAAGGCTGAAGCTGACAGGAGGACTCCAAAGACCTCCAGGGCATCCGTGTCCTCCAAGTCCACAGAGGACTCTAAAAGCAACCAGGACACAGAAACGCCCGAAAATCCAGAGACCCCTGAAGGCTCTGAGAAAACTCCA
Peptide sequence:
MVYEEFNPDQANGSYESRQGPFDFDRKTIWQREAEELENVKRKVKLPAINSKNPSKTGTPVSHKEPERSRLSLPPMPGQKNSSPTNFSKLISNGYKDEWLQQQKAEADRRTPKTSRASVSSKSTEDSKSNQDTETPENPETPEGSEKTPDWYYHLPVKRSEKPVGAPPASQIPGLSDLRDSPNVNLPRARRYWIKETDSEYVKLAKQGGRPDLLKHFAPGTRQGSPVAYSLPDWYIHHSKPPTSHQREVPVVSIPDYMVYEEFNPDQANGSYESRQGPFDFDRKTIWQREAEELENVKRKVKLPAINSKNPSKTGTPVSHKEPERSRLSLPPMPGQKNSSPTNFSKLISNGYKDEWLQQQKAEADRRTPKTSRASVSSKSTEDSKSNQDTETPENPETPEGSEKTP
IRESfinder result
IRESfinder score
0.528460726
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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