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mmu_circMta3_471
Basic information of circular RNA
PanCircBase ID:
mmu_circMta3_471
mm39_Chr. Position ID:
chr17|84015827|84063105|+
Gene name:
Mta3
Transcript:
ENSMUST00000112350.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,6215,29930,45455,47160
Genomic length:
47278
Exon/intron sizes in nt:
6,89,41,27,64,118
Flanking exon/introns:
chr17:84013714-84015827|chr17:84063105-84070339
Splice length:
471
Other database IDs:
circAtlas: mmu-Mta3_0022
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_41301
Human Ortholog IDs:
Mature spliced Sequence:
ACTACGTTTATTTTGAGAATTCCTCCAGCAACCCGTACCTCATCAGACGGATAGAGGAGCTCAACAAGACTGCAAGTGGCAATGTGGAAGCAAAAGTCGTCTGCTTTTACAGAAGACGGGACATCTCCAACACGCTTATCATGCTCGCCGACAAGCATGCTAAAGAAACTGAGGAGGAGTCGGAGACGCCAGTTGAGGCCGACTTGACGGAGAAGCAGAAGCACCAGCTGAAACACAGGGAGCTCTTTCTGTCGCGCCAGTACGAGTCACTGCCTGCGACACATATCAGGGGGAAGTGCAGCGTGGCCCTGCTGAATGAGACAGAATCCGTGTTGTCATACCTTGACAAGGAGGATACCTTCTTCTACTCACTGGTATACGACCCTTCAGTGAAAACATTATTGGCTGACAAAGGTGAAATCAGAGTGGGCCCAAAGTACCAAGCTGACATTCCAGACATGCTACCAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGAAATCAGAGTGGGCCCA
59.96
GCTTCCACATTGCCACTTGC
60.67
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGAAATCAGAGTGGGCCCA
59.96
TGCTTCCACATTGCCACTTG
59.32
149
PCR template sequence:
CTGGTATACGACCCTTCAGTGAAAACATTATTGGCTGACAAAGGTGAAATCAGAGTGGGCCCAAAGTACCAAGCTGACATTCCAGACATGCTACCAGAAGACTACGTTTATTTTGAGAATTCCTCCAGCAACCCGTACCTCATCAGACGGATAGAGGAGCTCAACAAGACTGCAAGTGGCAATGTGGAAGCAAAAGTCGT
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-34a-5p(1), mmu-miR-138-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
ATGCTACCAGAAGACTACGTTTATTT
siRNA sets
AATAAACGTAGTCTTCTGG, AAATAAACGTAGTCTTCTG, AACGTAGTCTTCTGGTAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMTA3_471_ORF_1
1.2273
0.403021505
0.988402182
801
ORF sequence:
ATGCTCGCCGACAAGCATGCTAAAGAAACTGAGGAGGAGTCGGAGACGCCAGTTGAGGCCGACTTGACGGAGAAGCAGAAGCACCAGCTGAAACACAGGGAGCTCTTTCTGTCGCGCCAGTACGAGTCACTGCCTGCGACACATATCAGGGGGAAGTGCAGCGTGGCCCTGCTGAATGAGACAGAATCCGTGTTGTCATACCTTGACAAGGAGGATACCTTCTTCTACTCACTGGTATACGACCCTTCAGTGAAAACATTATTGGCTGACAAAGGTGAAATCAGAGTGGGCCCAAAGTACCAAGCTGACATTCCAGACATGCTACCAGAAGACTACGTTTATTTTGAGAATTCCTCCAGCAACCCGTACCTCATCAGACGGATAGAGGAGCTCAACAAGACTGCAAGTGGCAATGTGGAAGCAAAAGTCGTCTGCTTTTACAGAAGACGGGACATCTCCAACACGCTTATCATGCTCGCCGACAAGCATGCTAAAGAAACTGAGGAGGAGTCGGAGACGCCAGTTGAGGCCGACTTGACGGAGAAGCAGAAGCACCAGCTGAAACACAGGGAGCTCTTTCTGTCGCGCCAGTACGAGTCACTGCCTGCGACACATATCAGGGGGAAGTGCAGCGTGGCCCTGCTGAATGAGACAGAATCCGTGTTGTCATACCTTGACAAGGAGGATACCTTCTTCTACTCACTGGTATACGACCCTTCAGTGAAAACATTATTGGCTGACAAAGGTGAAATCAGAGTGGGCCCAAAGTACCAAGCTGACATTCCAGACATGCTACCAGAA
Peptide sequence:
MLADKHAKETEEESETPVEADLTEKQKHQLKHRELFLSRQYESLPATHIRGKCSVALLNETESVLSYLDKEDTFFYSLVYDPSVKTLLADKGEIRVGPKYQADIPDMLPEDYVYFENSSSNPYLIRRIEELNKTASGNVEAKVVCFYRRRDISNTLIMLADKHAKETEEESETPVEADLTEKQKHQLKHRELFLSRQYESLPATHIRGKCSVALLNETESVLSYLDKEDTFFYSLVYDPSVKTLLADKGEIRVGPKYQADIPDMLPE
IRESfinder result
IRESfinder score
0.567856915
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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