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mmu_circGm973_306
Basic information of circular RNA
PanCircBase ID:
mmu_circGm973_306
mm39_Chr. Position ID:
chr1|59590292|59591721|+
Gene name:
Gm973
Transcript:
ENSMUST00000114243.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,7
Exon/intron offsets:
0,1286
Genomic length:
1429
Exon/intron sizes in nt:
1,63,143
Flanking exon/introns:
chr1:59589198-59590292|chr1:59591721-59595314
Splice length:
306
Other database IDs:
CIRCpedia: MMU_CIRCpedia_24561, circAtlas: mmu-Gm973_0003
Human Ortholog IDs:
Mature spliced Sequence:
GACACATTGAGAGAGAGCCATCTCCGTGTCCACGCTTCGGAGCAAAGTCACAATGGAAAGAGTCAGCAAGCCTCCAGGGAGGTCCTTGGGCGGGCCTCATTCAGTTACTTTCAGCTTCCTACTGACAAATCCCTCTTCTCGTTCTACTGTGGAGCCTTCCCAGACAAACAAAGGAACATGAAACCCCACAAGGCCAGAGGCGGCTGCTTGTCACAGGAGCCTCCTGTTGAAAGATGCCTTTTCCCTCCTTTAGCATCAGCCGTTGGCTCAGAACAAAATACCCTTGGGGAAACAAAGAAAAAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTCCTGTTGAAAGATGCC
59.19
AGGCTTGCTGACTCTTTCCA
59.23
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTCCTGTTGAAAGATGCC
59.19
TCCATTGTGACTTTGCTCCGA
59.93
145
PCR template sequence:
CTTGTCACAGGAGCCTCCTGTTGAAAGATGCCTTTTCCCTCCTTTAGCATCAGCCGTTGGCTCAGAACAAAATACCCTTGGGGAAACAAAGAAAAAAAAGGACACATTGAGAGAGAGCCATCTCCGTGTCCACGCTTCGGAGCAAAGTCACAATGGAAAGAGTCAGCAAGCCTCCAGGGAGGTCCTTGGGCGGGCCTCAT
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-758-3p(1), mmu-miR-680(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGAAAAAAAAGGACACATTGAGAG
siRNA sets
AATGTGTCCTTTTTTTTCT, CAATGTGTCCTTTTTTTTC, ATGTGTCCTTTTTTTTCTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCGM973_306_ORF_1
0.5391
0.001148264
0.247661192
435
ORF sequence:
ATGAAACCCCACAAGGCCAGAGGCGGCTGCTTGTCACAGGAGCCTCCTGTTGAAAGATGCCTTTTCCCTCCTTTAGCATCAGCCGTTGGCTCAGAACAAAATACCCTTGGGGAAACAAAGAAAAAAAAGGACACATTGAGAGAGAGCCATCTCCGTGTCCACGCTTCGGAGCAAAGTCACAATGGAAAGAGTCAGCAAGCCTCCAGGGAGGTCCTTGGGCGGGCCTCATTCAGTTACTTTCAGCTTCCTACTGACAAATCCCTCTTCTCGTTCTACTGTGGAGCCTTCCCAGACAAACAAAGGAACATGAAACCCCACAAGGCCAGAGGCGGCTGCTTGTCACAGGAGCCTCCTGTTGAAAGATGCCTTTTCCCTCCTTTAGCATCAGCCGTTGGCTCAGAACAAAATACCCTTGGGGAAACAAAGAAAAAAAAG
Peptide sequence:
MKPHKARGGCLSQEPPVERCLFPPLASAVGSEQNTLGETKKKKDTLRESHLRVHASEQSHNGKSQQASREVLGRASFSYFQLPTDKSLFSFYCGAFPDKQRNMKPHKARGGCLSQEPPVERCLFPPLASAVGSEQNTLGETKKKK
IRESfinder result
IRESfinder score
0.656596103
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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