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mmu_circTsc1_292
Basic information of circular RNA
PanCircBase ID:
mmu_circTsc1_292
mm39_Chr. Position ID:
chr2|28562404|28565260|+
Gene name:
Tsc1
Transcript:
ENSMUST00000028155.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
11,12,13
Exon/intron offsets:
0,392,2795
Genomic length:
2856
Exon/intron sizes in nt:
112,119,61
Flanking exon/introns:
chr2:28561893-28562404|chr2:28565260-28565674
Splice length:
292
Other database IDs:
CIRCpedia: HSA_CIRCpedia_178338
Human Ortholog IDs:
Mature spliced Sequence:
GCTAGTCTCTGGAGCCCATCTGCGGTCTGTGGTATGACCACTCCTCCTACGTCTCCTGGAAATGTCCCAGCTGATTTGTCACATCCGTATAGTAAAGCCTTTGGTACCACTGGTGGAAAAGGAACTCCTTCAGGAACCCCAGCGACCTCTCCTCCTCCAGCCCCACCTTGTCCCCAAGATGACTGTGTGCATGGTTCAGCAGCCCAGGCCTCAGCCACAGCCCCCAGGAAGGAAGAAAGAGCAGATTCCTCAAGGCCTTACCTTCACAGACAGTCAAACGACCGAGGATTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCCCAGGAAGGAAGAAAG
60.32
TGGGACATTTCCAGGAGACG
59.39
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCCCAGGAAGGAAGAAAG
60.32
GGGACATTTCCAGGAGACGT
59.39
141
PCR template sequence:
GGTTCAGCAGCCCAGGCCTCAGCCACAGCCCCCAGGAAGGAAGAAAGAGCAGATTCCTCAAGGCCTTACCTTCACAGACAGTCAAACGACCGAGGATTAGGCTAGTCTCTGGAGCCCATCTGCGGTCTGTGGTATGACCACTCCTCCTACGTCTCCTGGAAATGTCCCAGCTGATTTGTCACATCCGTATAGTAAAGCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GACCGAGGATTAGGCTAGTCTCTGGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTSC1_292_ORF_1
1.1346
0.019378026
0.238220633
264
ORF sequence:
ATGACCACTCCTCCTACGTCTCCTGGAAATGTCCCAGCTGATTTGTCACATCCGTATAGTAAAGCCTTTGGTACCACTGGTGGAAAAGGAACTCCTTCAGGAACCCCAGCGACCTCTCCTCCTCCAGCCCCACCTTGTCCCCAAGATGACTGTGTGCATGGTTCAGCAGCCCAGGCCTCAGCCACAGCCCCCAGGAAGGAAGAAAGAGCAGATTCCTCAAGGCCTTACCTTCACAGACAGTCAAACGACCGAGGATTAGGCTAG
Peptide sequence:
MTTPPTSPGNVPADLSHPYSKAFGTTGGKGTPSGTPATSPPPAPPCPQDDCVHGSAAQASATAPRKEERADSSRPYLHRQSNDRGLG
IRESfinder result
IRESfinder score
0.487906302
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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