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mmu_circTrip12_284
Basic information of circular RNA
PanCircBase ID:
mmu_circTrip12_284
mm39_Chr. Position ID:
chr1|84738731|84739750|-
Gene name:
Trip12
Transcript:
ENSMUST00000027421.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
15,14
Exon/intron offsets:
0,853
Genomic length:
1019
Exon/intron sizes in nt:
1,18,166
Flanking exon/introns:
chr1:84738640-84738731|chr1:84739750-84739839
Splice length:
284
Other database IDs:
circAtlas: mmu-Trip12_0024
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_39938
Human Ortholog IDs:
Mature spliced Sequence:
AACTTACTGCAACAGGTTGCTTCCAAAGATCTACTTACAAATGTTCAACAATTGTTGGTAGTGACTCCACCGATTTTAAGTTCTGGGATGTTTATTATGGTGGTTCGCATGTTTTCTCTGATGTGTTCCAACTGTCCAACATTAGCTGTTCAACTTATGAAACAAAACATTGCAGAAACACTTCACTTCCTGCTATGTGGTGCCTCCAATGGAAGTTGTCAAGAGCAGATTGACCTTGTTCCACGAAGTCCTCAAGAGCTGTATGAGCTGACATCTTTGATTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTTCCTGCTATGTGGTGCC
60.04
AAATCGGTGGAGTCACTACC
56.95
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCTGCTATGTGGTGCCTC
59.75
AAATCGGTGGAGTCACTACC
56.95
174
PCR template sequence:
ACTTCCTGCTATGTGGTGCCTCCAATGGAAGTTGTCAAGAGCAGATTGACCTTGTTCCACGAAGTCCTCAAGAGCTGTATGAGCTGACATCTTTGATTTGAACTTACTGCAACAGGTTGCTTCCAAAGATCTACTTACAAATGTTCAACAATTGTTGGTAGTGACTCCACCGATTTTAAGTTCTGGGATGTTTATTATGG
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-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-30d-5p(1), mmu-miR-30b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCTTTGATTTGAACTTACTGCAAC
siRNA sets
TTGCAGTAAGTTCAAATCA, GTTGCAGTAAGTTCAAATC, AGTAAGTTCAAATCAAAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTRIP12_284_ORF_1
0.6969
-0.043807635
0.062344675
198
ORF sequence:
ATGTTTATTATGGTGGTTCGCATGTTTTCTCTGATGTGTTCCAACTGTCCAACATTAGCTGTTCAACTTATGAAACAAAACATTGCAGAAACACTTCACTTCCTGCTATGTGGTGCCTCCAATGGAAGTTGTCAAGAGCAGATTGACCTTGTTCCACGAAGTCCTCAAGAGCTGTATGAGCTGACATCTTTGATTTGA
Peptide sequence:
MFIMVVRMFSLMCSNCPTLAVQLMKQNIAETLHFLLCGASNGSCQEQIDLVPRSPQELYELTSLI
IRESfinder result
IRESfinder score
0.835044237
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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