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mmu_circSupt3_503
Basic information of circular RNA
PanCircBase ID:
mmu_circSupt3_503
mm39_Chr. Position ID:
chr17|45347598|45359279|+
Gene name:
Supt3
Transcript:
ENSMUST00000050630.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,9,10,11
Exon/intron offsets:
0,1364,4504,11570
Genomic length:
11681
Exon/intron sizes in nt:
1,13,10,81,71,111
Flanking exon/introns:
chr17:45344200-45347598|chr17:45359279-45430029
Splice length:
503
Other database IDs:
circBase: mmu_circ_0006775, CIRCpedia: MMU_CIRCpedia_20498, circAtlas: mmu-Supt3_0004
Human Ortholog IDs:
Mature spliced Sequence:
CCAAAAAAGCTTCCAAATTCCGAGACTGGCTGGACTGCAGCAGCATGGAGATAAAACCCAATGTCATAGCTATGGAAATCCTGGCATATCTGGCATACGAAACCGTGGCCCAGCTGGTGGATCTGGCTCTTCTAGTGAGGCAAGATATGGTGTCCAAGGCAGGGGACCCCTTCAGCCATGCCATTTCTGCAACCTTCATTCAGTACCACAACTCTGCTGAGGGGTCCTCATGTTTGAAGTCCAGCCCAGACTCTCCTGAGAACACACCTCCTCCTACACCAACAGCTCCCTCTTCTGGATCACAGCATTCAGGTAGAGCTGCATCTGGTTCTTTGGGGAATGGGAACACAGGACAAGACACTGCCAAAACCAAGCAGCGGAAGAGGAAAAAGAGCACTGCGGCCTGTGGTGTCGAGGCTCACAGCGATGCCATCCAGCCCTGCCACATCAGAGAGGCCATTCGACGCTACGGCCACAAGATTGGCCCTCTCTCCCCATTCACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCACATCAGAGAGGCCATT
60.11
CGTATGCCAGATATGCCAGGA
59.72
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCACATCAGAGAGGCCATT
60.11
TCGTATGCCAGATATGCCAGG
59.72
162
PCR template sequence:
CTGTGGTGTCGAGGCTCACAGCGATGCCATCCAGCCCTGCCACATCAGAGAGGCCATTCGACGCTACGGCCACAAGATTGGCCCTCTCTCCCCATTCACACCAAAAAAGCTTCCAAATTCCGAGACTGGCTGGACTGCAGCAGCATGGAGATAAAACCCAATGTCATAGCTATGGAAATCCTGGCATATCTGGCATACGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-185-5p(1), mmu-miR-34b-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCCCATTCACACCAAAAAAGCTTC
siRNA sets
TTTTTTGGTGTGAATGGGG, TTTTTGGTGTGAATGGGGA, CTTTTTTGGTGTGAATGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSUPT3_503_ORF_1
0.9503
0.228251518
0.756903852
513
ORF sequence:
ATGGAGATAAAACCCAATGTCATAGCTATGGAAATCCTGGCATATCTGGCATACGAAACCGTGGCCCAGCTGGTGGATCTGGCTCTTCTAGTGAGGCAAGATATGGTGTCCAAGGCAGGGGACCCCTTCAGCCATGCCATTTCTGCAACCTTCATTCAGTACCACAACTCTGCTGAGGGGTCCTCATGTTTGAAGTCCAGCCCAGACTCTCCTGAGAACACACCTCCTCCTACACCAACAGCTCCCTCTTCTGGATCACAGCATTCAGGTAGAGCTGCATCTGGTTCTTTGGGGAATGGGAACACAGGACAAGACACTGCCAAAACCAAGCAGCGGAAGAGGAAAAAGAGCACTGCGGCCTGTGGTGTCGAGGCTCACAGCGATGCCATCCAGCCCTGCCACATCAGAGAGGCCATTCGACGCTACGGCCACAAGATTGGCCCTCTCTCCCCATTCACACCAAAAAAGCTTCCAAATTCCGAGACTGGCTGGACTGCAGCAGCATGGAGATAA
Peptide sequence:
MEIKPNVIAMEILAYLAYETVAQLVDLALLVRQDMVSKAGDPFSHAISATFIQYHNSAEGSSCLKSSPDSPENTPPPTPTAPSSGSQHSGRAASGSLGNGNTGQDTAKTKQRKRKKSTAACGVEAHSDAIQPCHIREAIRRYGHKIGPLSPFTPKKLPNSETGWTAAAWR
IRESfinder result
IRESfinder score
0.456734475
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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