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mmu_circNsf_491
Basic information of circular RNA
PanCircBase ID:
mmu_circNsf_491
mm39_Chr. Position ID:
chr11|103804141|103819669|-
Gene name:
Nsf
Transcript:
ENSMUST00000103075.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,485,3190,12832,15428
Genomic length:
15528
Exon/intron sizes in nt:
76,10,81,67,40,100
Flanking exon/introns:
chr11:103801424-103804141|chr11:103819669-103821555
Splice length:
491
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCATGTGATGGTGAGGACGTCCCCCAATCACAAGTACATATTTACGCTGAGGACCCATCCGTCAGTGGTTCCAGGATGCATCGCGTTCAGCTTGCCTCAGCGAAAATGGGCTGGACTTTCTATTGGACAGGACATAGAAGTTGCCTTGTATTCGTTTGACAAAGCCAAGCAGTGCATCGGCACAATGACCATCGAGATCGACTTCCTGCAGAAGAAGAACATCGACTCCAACCCTTACGACACCGACAAGATGGCCGCCGAGTTCATCCAGCAGTTCAACAACCAGGCCTTCTCAGTGGGGCAGCAGCTTGTCTTTAGCTTCAATGATAAGCTCTTTGGATTACTGGTGAAGGACATTGAAGCCATGGATCCCAGCATCCTGAAGGGAGAGCCTGCATCAGGCAAAAGGCAGAAGATTGAGGTAGGCCTGGTTGTTGGAAACAGTCAAGTTGCATTTGAAAAAGCAGAAAATTCGTCGCTCAATCTTATCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTAGGCCTGGTTGTTGGAA
59.89
TGCATCCTGGAACCACTGAC
59.96
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTAGGCCTGGTTGTTGGAA
59.89
CGATGCATCCTGGAACCACT
60.11
154
PCR template sequence:
CCTGCATCAGGCAAAAGGCAGAAGATTGAGGTAGGCCTGGTTGTTGGAAACAGTCAAGTTGCATTTGAAAAAGCAGAAAATTCGTCGCTCAATCTTATCGGCATGTGATGGTGAGGACGTCCCCCAATCACAAGTACATATTTACGCTGAGGACCCATCCGTCAGTGGTTCCAGGATGCATCGCGTTCAGCTTGCCTCAG
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-135a-5p(1), mmu-miR-381-3p(1), mmu-miR-127-5p(1), mmu-miR-190b-5p(1), mmu-miR-484(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCAATCTTATCGGCATGTGATGGTG
siRNA sets
ACATGCCGATAAGATTGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNSF_491_ORF_1
1.2076
0.401197357
0.897559488
492
ORF sequence:
ATGGTGAGGACGTCCCCCAATCACAAGTACATATTTACGCTGAGGACCCATCCGTCAGTGGTTCCAGGATGCATCGCGTTCAGCTTGCCTCAGCGAAAATGGGCTGGACTTTCTATTGGACAGGACATAGAAGTTGCCTTGTATTCGTTTGACAAAGCCAAGCAGTGCATCGGCACAATGACCATCGAGATCGACTTCCTGCAGAAGAAGAACATCGACTCCAACCCTTACGACACCGACAAGATGGCCGCCGAGTTCATCCAGCAGTTCAACAACCAGGCCTTCTCAGTGGGGCAGCAGCTTGTCTTTAGCTTCAATGATAAGCTCTTTGGATTACTGGTGAAGGACATTGAAGCCATGGATCCCAGCATCCTGAAGGGAGAGCCTGCATCAGGCAAAAGGCAGAAGATTGAGGTAGGCCTGGTTGTTGGAAACAGTCAAGTTGCATTTGAAAAAGCAGAAAATTCGTCGCTCAATCTTATCGGCATGTGA
Peptide sequence:
MVRTSPNHKYIFTLRTHPSVVPGCIAFSLPQRKWAGLSIGQDIEVALYSFDKAKQCIGTMTIEIDFLQKKNIDSNPYDTDKMAAEFIQQFNNQAFSVGQQLVFSFNDKLFGLLVKDIEAMDPSILKGEPASGKRQKIEVGLVVGNSQVAFEKAENSSLNLIGM
IRESfinder result
IRESfinder score
0.523110182
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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