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mmu_circPlcb1_331
Basic information of circular RNA
PanCircBase ID:
mmu_circPlcb1_331
mm39_Chr. Position ID:
chr2|135164529|135172287|+
Gene name:
Plcb1
Transcript:
ENSMUST00000131552.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
13,14,15
Exon/intron offsets:
0,3013,7690
Genomic length:
7758
Exon/intron sizes in nt:
85,178,68
Flanking exon/introns:
chr2:135159788-135164529|chr2:135172287-135175267
Splice length:
331
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CCCGAAGCAACAAGCCAAGATGGCCGAGTATTGCCGATTAATCTTTGGTGATGCCCTCCTGATGGAACCACTGGAAAAATACCCACTGGAATCTGGGGTACCTCTTCCAAGCCCTATGGATTTAATGTATAAAATCTTGGTGAAAAACAAGAAGAAGTCGCACAAGTCGTCAGAGGGAAGTGGTAAGAAGAAGCTTTCAGAGCAAGCTTCCAACACCTACAGCGACTCCTCCAGTGTGTTCGAGCCTTCGTCTCCAGGAGCTGGGGAAGCAGATACGGAGAGTGATGACGATGACGACGACGATGACTGTAAAAAGTCTTCCATGGATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTTCGAGCCTTCGTCTC
60.04
GGTTCCATCAGGAGGGCATC
60.18
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGGAAGCAGATACGGAGA
60.03
CAGTGGTTCCATCAGGAGGG
59.75
143
PCR template sequence:
CAGTGTGTTCGAGCCTTCGTCTCCAGGAGCTGGGGAAGCAGATACGGAGAGTGATGACGATGACGACGACGATGACTGTAAAAAGTCTTCCATGGATGAGCCCGAAGCAACAAGCCAAGATGGCCGAGTATTGCCGATTAATCTTTGGTGATGCCCTCCTGATGGAACCACTGGAAAAATACCCACTGGAATCTGGGGTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-7b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCATGGATGAGCCCGAAGCAACAA
siRNA sets
TGTTGCTTCGGGCTCATCC, TTGTTGCTTCGGGCTCATC, TTGCTTCGGGCTCATCCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPLCB1_331_ORF_1
0.9203
0.365191433
0.662331195
378
ORF sequence:
ATGACGATGACGACGACGATGACTGTAAAAAGTCTTCCATGGATGAGCCCGAAGCAACAAGCCAAGATGGCCGAGTATTGCCGATTAATCTTTGGTGATGCCCTCCTGATGGAACCACTGGAAAAATACCCACTGGAATCTGGGGTACCTCTTCCAAGCCCTATGGATTTAATGTATAAAATCTTGGTGAAAAACAAGAAGAAGTCGCACAAGTCGTCAGAGGGAAGTGGTAAGAAGAAGCTTTCAGAGCAAGCTTCCAACACCTACAGCGACTCCTCCAGTGTGTTCGAGCCTTCGTCTCCAGGAGCTGGGGAAGCAGATACGGAGAGTGATGACGATGACGACGACGATGACTGTAAAAAGTCTTCCATGGATGAG
Peptide sequence:
MTMTTTMTVKSLPWMSPKQQAKMAEYCRLIFGDALLMEPLEKYPLESGVPLPSPMDLMYKILVKNKKKSHKSSEGSGKKKLSEQASNTYSDSSSVFEPSSPGAGEADTESDDDDDDDDCKKSSMDE
IRESfinder result
IRESfinder score
0.177566385
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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