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mmu_circSupt3_468
Basic information of circular RNA
PanCircBase ID:
mmu_circSupt3_468
mm39_Chr. Position ID:
chr17|45344124|45352273|+
Gene name:
Supt3
Transcript:
ENSMUST00000050630.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,8,9,10
Exon/intron offsets:
0,3474,4838,7978
Genomic length:
8149
Exon/intron sizes in nt:
76,11,31,08,171
Flanking exon/introns:
chr17:45314116-45344124|chr17:45352273-45359168
Splice length:
468
Other database IDs:
CIRCpedia: MMU_CIRCpedia_221108, circAtlas: mmu-Supt3_0009
Human Ortholog IDs:
Mature spliced Sequence:
AGAGCAGAAAGACAGACTCGTACTATGGATTCAGCTCAATATGCAGAATTCTGTGAAAGCCGACAGTTAAGTTTCTCCAAAAAAGCTTCCAAATTCCGAGACTGGCTGGACTGCAGCAGCATGGAGATAAAACCCAATGTCATAGCTATGGAAATCCTGGCATATCTGGCATACGAAACCGTGGCCCAGCTGGTGGATCTGGCTCTTCTAGTGAGGCAAGATATGGTGTCCAAGGCAGGGGACCCCTTCAGCCATGCCATTTCTGCAACCTTCATTCAGTACCACAACTCTGCTGAGGGGTCCTCATGTTTGAAGTCCAGCCCAGACTCTCCTGAGAACACACCTCCTCCTACACCAACAGCTCCCTCTTCTGGATCACAGCATTCAGGTAGAGCTGCATCTGGTTCTTTGGGGAATGGGAACACAGGACAAGACACTGCCAAAACCAAGCAGCGGAAGAGGAAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGCATCTGGTTCTTTGGG
59.47
AACTGTCGGCTTTCACAGAA
57.67
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGCATCTGGTTCTTTGGG
59.47
TGGAGAAACTTAACTGTCGGCT
59.63
154
PCR template sequence:
TTCTGGATCACAGCATTCAGGTAGAGCTGCATCTGGTTCTTTGGGGAATGGGAACACAGGACAAGACACTGCCAAAACCAAGCAGCGGAAGAGGAAAAAGAGAGCAGAAAGACAGACTCGTACTATGGATTCAGCTCAATATGCAGAATTCTGTGAAAGCCGACAGTTAAGTTTCTCCAAAAAAGCTTCCAAATTCCGAG
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-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-34b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAGAGGAAAAAGAGAGCAGAAAGAC
siRNA sets
TTTCTGCTCTCTTTTTCCT, CTTTCTGCTCTCTTTTTCC, TTCTGCTCTCTTTTTCCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSUPT3_468_ORF_1
0.8124
0.215583436
0.976071833
912
ORF sequence:
ATGGATTCAGCTCAATATGCAGAATTCTGTGAAAGCCGACAGTTAAGTTTCTCCAAAAAAGCTTCCAAATTCCGAGACTGGCTGGACTGCAGCAGCATGGAGATAAAACCCAATGTCATAGCTATGGAAATCCTGGCATATCTGGCATACGAAACCGTGGCCCAGCTGGTGGATCTGGCTCTTCTAGTGAGGCAAGATATGGTGTCCAAGGCAGGGGACCCCTTCAGCCATGCCATTTCTGCAACCTTCATTCAGTACCACAACTCTGCTGAGGGGTCCTCATGTTTGAAGTCCAGCCCAGACTCTCCTGAGAACACACCTCCTCCTACACCAACAGCTCCCTCTTCTGGATCACAGCATTCAGGTAGAGCTGCATCTGGTTCTTTGGGGAATGGGAACACAGGACAAGACACTGCCAAAACCAAGCAGCGGAAGAGGAAAAAGAGAGCAGAAAGACAGACTCGTACTATGGATTCAGCTCAATATGCAGAATTCTGTGAAAGCCGACAGTTAAGTTTCTCCAAAAAAGCTTCCAAATTCCGAGACTGGCTGGACTGCAGCAGCATGGAGATAAAACCCAATGTCATAGCTATGGAAATCCTGGCATATCTGGCATACGAAACCGTGGCCCAGCTGGTGGATCTGGCTCTTCTAGTGAGGCAAGATATGGTGTCCAAGGCAGGGGACCCCTTCAGCCATGCCATTTCTGCAACCTTCATTCAGTACCACAACTCTGCTGAGGGGTCCTCATGTTTGAAGTCCAGCCCAGACTCTCCTGAGAACACACCTCCTCCTACACCAACAGCTCCCTCTTCTGGATCACAGCATTCAGGTAGAGCTGCATCTGGTTCTTTGGGGAATGGGAACACAGGACAAGACACTGCCAAAACCAAGCAGCGGAAGAGGAAAAAG
Peptide sequence:
MDSAQYAEFCESRQLSFSKKASKFRDWLDCSSMEIKPNVIAMEILAYLAYETVAQLVDLALLVRQDMVSKAGDPFSHAISATFIQYHNSAEGSSCLKSSPDSPENTPPPTPTAPSSGSQHSGRAASGSLGNGNTGQDTAKTKQRKRKKRAERQTRTMDSAQYAEFCESRQLSFSKKASKFRDWLDCSSMEIKPNVIAMEILAYLAYETVAQLVDLALLVRQDMVSKAGDPFSHAISATFIQYHNSAEGSSCLKSSPDSPENTPPPTPTAPSSGSQHSGRAASGSLGNGNTGQDTAKTKQRKRKK
IRESfinder result
IRESfinder score
0.600002465
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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