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mmu_circSag_369
Basic information of circular RNA
PanCircBase ID:
mmu_circSag_369
mm39_Chr. Position ID:
chr1|87756118|87768569|+
Gene name:
Sag
Transcript:
ENSMUST00000177757.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
10,11,12,13,14
Exon/intron offsets:
0,3442,6153,8913,12395
Genomic length:
12451
Exon/intron sizes in nt:
73,138,78,24,56
Flanking exon/introns:
chr1:87752232-87756118|chr1:87768569-87772590
Splice length:
369
Other database IDs:
circAtlas: mmu-Sag_0001
Human Ortholog IDs:
Mature spliced Sequence:
TGGAACAGATAGCCAATGTGGTTCTCTACTCAAGTGACTATTACGTCAAGCCTGTAGCCTCGGAGGAAACACAAGAAAAAGTGCAGCCAAACAGCACTTTGACCAAGACACTGGTGCTGGTGCCCCTACTGGCTAACAACAGAGAAAGAAGAGGCATCGCGCTGGATGGGAAGATCAAGCATGAGGACACAAACCTGGCCTCCAGCACCATCATCAAGGAGGGCATCGACCGGACCGTCATGGGGATCCTGGTGTCATACCATATCAAGGTGAAGCTCACGGTGTCGGGCTTTCTAGGAGAGCTCACATCCAGTGAAGTGGCTACCGAGGTGCCGTTCCGCCTCATGCACCCGCAGCCTGAGGATCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGGGCTTTCTAGGAGAGCT
60.03
TCTTGTGTTTCCTCCGAGGC
59.97
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGGGCTTTCTAGGAGAGCT
60.03
CTTGTGTTTCCTCCGAGGCT
59.96
160
PCR template sequence:
GTGAAGCTCACGGTGTCGGGCTTTCTAGGAGAGCTCACATCCAGTGAAGTGGCTACCGAGGTGCCGTTCCGCCTCATGCACCCGCAGCCTGAGGATCCAGTGGAACAGATAGCCAATGTGGTTCTCTACTCAAGTGACTATTACGTCAAGCCTGTAGCCTCGGAGGAAACACAAGAAAAAGTGCAGCCAAACAGCACTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-106b-5p(1), mmu-miR-425-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGAGGATCCAGTGGAACAGATAGC
siRNA sets
TATCTGTTCCACTGGATCC, ATCTGTTCCACTGGATCCT, CTATCTGTTCCACTGGATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSAG_369_ORF_1
1.2085
0.529580747
0.939685154
498
ORF sequence:
ATGGGGATCCTGGTGTCATACCATATCAAGGTGAAGCTCACGGTGTCGGGCTTTCTAGGAGAGCTCACATCCAGTGAAGTGGCTACCGAGGTGCCGTTCCGCCTCATGCACCCGCAGCCTGAGGATCCAGTGGAACAGATAGCCAATGTGGTTCTCTACTCAAGTGACTATTACGTCAAGCCTGTAGCCTCGGAGGAAACACAAGAAAAAGTGCAGCCAAACAGCACTTTGACCAAGACACTGGTGCTGGTGCCCCTACTGGCTAACAACAGAGAAAGAAGAGGCATCGCGCTGGATGGGAAGATCAAGCATGAGGACACAAACCTGGCCTCCAGCACCATCATCAAGGAGGGCATCGACCGGACCGTCATGGGGATCCTGGTGTCATACCATATCAAGGTGAAGCTCACGGTGTCGGGCTTTCTAGGAGAGCTCACATCCAGTGAAGTGGCTACCGAGGTGCCGTTCCGCCTCATGCACCCGCAGCCTGAGGATCCA
Peptide sequence:
MGILVSYHIKVKLTVSGFLGELTSSEVATEVPFRLMHPQPEDPVEQIANVVLYSSDYYVKPVASEETQEKVQPNSTLTKTLVLVPLLANNRERRGIALDGKIKHEDTNLASSTIIKEGIDRTVMGILVSYHIKVKLTVSGFLGELTSSEVATEVPFRLMHPQPEDP
IRESfinder result
IRESfinder score
0.412673681
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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