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mmu_circTmx3_712
Basic information of circular RNA
PanCircBase ID:
mmu_circTmx3_712
mm39_Chr. Position ID:
chr18|90541653|90556691|+
Gene name:
Tmx3
Transcript:
ENSMUST00000025515.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
7,8,9,10,11,12,13,14,15
Exon/intron offsets:
0,751,4346,6530,9453,9691,10852,13545,14969
Genomic length:
15038
Exon/intron sizes in nt:
100,78,67,99,58,54,57,130,69
Flanking exon/introns:
chr18:90539161-90541653|chr18:90556691-90558062
Splice length:
712
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGCTCTAATTCGGCCTCTTCCAAGTCAACAAATGTTCGACCATGTACGGAAGAGGCACCGTGTATTTTTTGTTTATATTGGTGGAGAATCACCCTTGAAAGAGAAATACATAGATGCTGCTTCAGAGTTAATTGTATATACATACTTTTTTTCTGCCTCAGAAGATGTGGTTCCTGAGTACGTGACGCTGAAAGAGATGCCTGCTGTGCTTGTTTTCAAAGATGACACTTATTTTGTTTATGATGAGTATGAAGATGGCGATCTGTCCTCATGGATCAGCAGAGAGAGGTTTCAGAACTACCTTACTATGGATGGTTTTCTCCTGTATGAACTTGGAGACACAGGAAAGCTTGTGGCCATAGCAGTTATTGATGAGAAAAACACATCACTTGAGCATACCAGATTAAAGTCAATTATTCAGGAAGTTGCTAGAGATTTCAGAGACCACTTCCATAGAGATTTTCAGTTTGGCCATATGGATGGAAATGACTATATAAACACTTTGTTGATGGACGAATTAACAGTCCCAACAATAGTTGTACTGAATACTTCAAACCAACAGTACTTTTTGCTAGATAGACATATTAAGGATGCGAGCGACATGGTCCAGTTCATTAATAGCATTTTGGATGGTACAGTACCAGCCCAAGGAGGTGATAGCATTTTTCAGAGATTGAAAAGAATAGTATTTGATGCCAAATCTACAATTGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTACAGTACCAGCCCAAGGAG
59.79
CGGTGCCTCTTCCGTACATG
60.81
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTACAGTACCAGCCCAAGGA
58.73
CGGTGCCTCTTCCGTACATG
60.81
140
PCR template sequence:
CATTAATAGCATTTTGGATGGTACAGTACCAGCCCAAGGAGGTGATAGCATTTTTCAGAGATTGAAAAGAATAGTATTTGATGCCAAATCTACAATTGTGGGCTCTAATTCGGCCTCTTCCAAGTCAACAAATGTTCGACCATGTACGGAAGAGGCACCGTGTATTTTTTGTTTATATTGGTGGAGAATCACCCTTGAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-93-5p(2), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-709(1), mmu-miR-214-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATCTACAATTGTGGGCTCTAATTCGG
siRNA sets
AATTAGAGCCCACAATTGT, ATTAGAGCCCACAATTGTA, GAATTAGAGCCCACAATTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTMX3_712_ORF_1
0.7093
-0.069106939
0.875631694
858
ORF sequence:
ATGTTCGACCATGTACGGAAGAGGCACCGTGTATTTTTTGTTTATATTGGTGGAGAATCACCCTTGAAAGAGAAATACATAGATGCTGCTTCAGAGTTAATTGTATATACATACTTTTTTTCTGCCTCAGAAGATGTGGTTCCTGAGTACGTGACGCTGAAAGAGATGCCTGCTGTGCTTGTTTTCAAAGATGACACTTATTTTGTTTATGATGAGTATGAAGATGGCGATCTGTCCTCATGGATCAGCAGAGAGAGGTTTCAGAACTACCTTACTATGGATGGTTTTCTCCTGTATGAACTTGGAGACACAGGAAAGCTTGTGGCCATAGCAGTTATTGATGAGAAAAACACATCACTTGAGCATACCAGATTAAAGTCAATTATTCAGGAAGTTGCTAGAGATTTCAGAGACCACTTCCATAGAGATTTTCAGTTTGGCCATATGGATGGAAATGACTATATAAACACTTTGTTGATGGACGAATTAACAGTCCCAACAATAGTTGTACTGAATACTTCAAACCAACAGTACTTTTTGCTAGATAGACATATTAAGGATGCGAGCGACATGGTCCAGTTCATTAATAGCATTTTGGATGGTACAGTACCAGCCCAAGGAGGTGATAGCATTTTTCAGAGATTGAAAAGAATAGTATTTGATGCCAAATCTACAATTGTGGGCTCTAATTCGGCCTCTTCCAAGTCAACAAATGTTCGACCATGTACGGAAGAGGCACCGTGTATTTTTTGTTTATATTGGTGGAGAATCACCCTTGAAAGAGAAATACATAGATGCTGCTTCAGAGTTAATTGTATATACATACTTTTTTTCTGCCTCAGAAGATGTGGTTCCTGA
Peptide sequence:
MFDHVRKRHRVFFVYIGGESPLKEKYIDAASELIVYTYFFSASEDVVPEYVTLKEMPAVLVFKDDTYFVYDEYEDGDLSSWISRERFQNYLTMDGFLLYELGDTGKLVAIAVIDEKNTSLEHTRLKSIIQEVARDFRDHFHRDFQFGHMDGNDYINTLLMDELTVPTIVVLNTSNQQYFLLDRHIKDASDMVQFINSILDGTVPAQGGDSIFQRLKRIVFDAKSTIVGSNSASSKSTNVRPCTEEAPCIFCLYWWRITLEREIHRCCFRVNCIYILFFCLRRCGS
IRESfinder result
IRESfinder score
0.695015783
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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