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mmu_circTsc1_249
Basic information of circular RNA
PanCircBase ID:
mmu_circTsc1_249
mm39_Chr. Position ID:
chr2|28542180|28548802|+
Gene name:
Tsc1
Transcript:
ENSMUST00000156857.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,6436
Genomic length:
6622
Exon/intron sizes in nt:
63,186
Flanking exon/introns:
chr2:28531331-28542180|chr2:28548802-28551593
Splice length:
249
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TGACCATGAAAGATACCAGGCTGACGGCACTGGAAACTGATGTACCATCTGTCCCCAGAACAGTCTGGTAGTGGCCCTAATGAAGAGCTGTGCAAACCTTTAGCACACGTCCTGGAGCCCACACAGCAGAGTTGAGTGAGAGAATGGCCCAGTTAGCCAACATTGGGGAGCTGCTCTCCATGCTGGACTCCTCCACACTGGGTGTGCGGGATGACGTGACAGCCATCTTCAAGGAGTCCCTCAATTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACATTGGGGAGCTGCTCTC
60.03
GGGCCACTACCAGACTGTTC
60.04
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCTCTCCATGCTGGACTC
60.18
GGGCCACTACCAGACTGTTC
60.04
156
PCR template sequence:
CAGTTAGCCAACATTGGGGAGCTGCTCTCCATGCTGGACTCCTCCACACTGGGTGTGCGGGATGACGTGACAGCCATCTTCAAGGAGTCCCTCAATTCTGTGACCATGAAAGATACCAGGCTGACGGCACTGGAAACTGATGTACCATCTGTCCCCAGAACAGTCTGGTAGTGGCCCTAATGAAGAGCTGTGCAAACCTT
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
TCCCTCAATTCTGTGACCATGAAAGA
siRNA sets
ATGGTCACAGAATTGAGGG, TTCATGGTCACAGAATTGA, TCATGGTCACAGAATTGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTSC1_249_ORF_1
1.2648
0.367082902
0.468905413
177
ORF sequence:
ATGGCCCAGTTAGCCAACATTGGGGAGCTGCTCTCCATGCTGGACTCCTCCACACTGGGTGTGCGGGATGACGTGACAGCCATCTTCAAGGAGTCCCTCAATTCTGTGACCATGAAAGATACCAGGCTGACGGCACTGGAAACTGATGTACCATCTGTCCCCAGAACAGTCTGGTAG
Peptide sequence:
MAQLANIGELLSMLDSSTLGVRDDVTAIFKESLNSVTMKDTRLTALETDVPSVPRTVW
IRESfinder result
IRESfinder score
0.41913846
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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