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mmu_circNedd4l_300
Basic information of circular RNA
PanCircBase ID:
mmu_circNedd4l_300
mm39_Chr. Position ID:
chr18|65130418|65276917|+
Gene name:
Nedd4l
Transcript:
ENSMUST00000235343.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,77376,80350,82670,146448
Genomic length:
146499
Exon/intron sizes in nt:
74,82,39,54,51
Flanking exon/introns:
chr18:65021166-65130418|chr18:65276917-65288326
Splice length:
300
Other database IDs:
circAtlas: mmu-Nedd4l_0015
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_121427
Human Ortholog IDs:
Mature spliced Sequence:
GGAGAATCCCGTATCCTCAGAGTAAAAGTTGTTTCTGGAATTGACCTCGCCAAGAAGGACATATTTGGAGCCAGCGACCCATACGTGAAGCTGTCCTTGTATGTAGCTGATGAGAATAGAGAACTTGCTCTGGTTCAAACCAAGACAATTAAAAAGACGCTGAACCCAAAGTGGAATGAAGAGTTTTATTTTAGGGTAAATCCATCTAATCACAGGCTCCTATTTGAAGTATTTGACGAGAACAGATTGACACGAGACGACTTCCTGGGCCAGGTGGACGTGCCTCTTAGTCACCTTCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACACGAGACGACTTCCTGG
60.11
ACAGCTTCACGTATGGGTCG
60.11
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACACGAGACGACTTCCTGG
60.11
GGACAGCTTCACGTATGGGT
59.75
148
PCR template sequence:
TCCATCTAATCACAGGCTCCTATTTGAAGTATTTGACGAGAACAGATTGACACGAGACGACTTCCTGGGCCAGGTGGACGTGCCTCTTAGTCACCTTCCGGGAGAATCCCGTATCCTCAGAGTAAAAGTTGTTTCTGGAATTGACCTCGCCAAGAAGGACATATTTGGAGCCAGCGACCCATACGTGAAGCTGTCCTTGT
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-26a-5p(1), mmu-miR-381-3p(1), mmu-miR-149-5p(1), mmu-miR-26b-5p(1), mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TAGTCACCTTCCGGGAGAATCCCGTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.72265584
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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