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mmu_circNusap1_494
Basic information of circular RNA
PanCircBase ID:
mmu_circNusap1_494
mm39_Chr. Position ID:
chr2|119460817|119469044|+
Gene name:
Nusap1
Transcript:
ENSMUST00000068225.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
4,5,6,7
Exon/intron offsets:
0,3383,5141,8111
Genomic length:
8227
Exon/intron sizes in nt:
16,99,91,10,116
Flanking exon/introns:
chr2:119458174-119460817|chr2:119469044-119470057
Splice length:
494
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ACTTTGTTGCAGGATCATTTGGAGATGAAAGGAACTGATAGTAGTAACTTCCAAAATCAAGAAAATCAGGAAAATCAAGACCCCAGGGATACAGCAGAAGTTCCTTCTCTGCCGGAGCAGAGGCCAGAGGACGGCAATGCGGCTTCTTCAGGAGAAGGAGAAGTAAATGACATTAAAGATTCAAAGAAGCCTTTAGAAAAAAGATCTCTATGCACGGATGAGTTTTCTAAACTTGGGAACAATAAAAGGACTTCAGCCACAACACCAAACTTTAAGAAGCTTCATGAGGCTCGTTTTAAGAAAATGGAATCCATTGATGAATATATTATGAGGAAAAAGAAACACCTTAAAGAACACAGTTCACTTAATGAACTAAAGCTTGACAAAAAAGGGATAGTGACCCCAGTTCCTCCAAGAGGAAGGCTCTCTGTACCCTGTACTCCTGCCAGGCAGCAGTGCCCACAAGGCCACTCAGCAACTAAAATGAATGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTACCCTGTACTCCTGCCA
59.88
GCTGTATCCCTGGGGTCTTG
59.82
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTACCCTGTACTCCTGCCA
59.88
TGCTGTATCCCTGGGGTCTT
60.25
162
PCR template sequence:
TAGTGACCCCAGTTCCTCCAAGAGGAAGGCTCTCTGTACCCTGTACTCCTGCCAGGCAGCAGTGCCCACAAGGCCACTCAGCAACTAAAATGAATGTCAGACTTTGTTGCAGGATCATTTGGAGATGAAAGGAACTGATAGTAGTAACTTCCAAAATCAAGAAAATCAGGAAAATCAAGACCCCAGGGATACAGCAGAAG
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-211-5p(1), mmu-miR-204-5p(1), mmu-miR-298-5p(1), mmu-miR-181b-5p(1), mmu-miR-207(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAATGAATGTCAGACTTTGTTGCAGG
siRNA sets
CAACAAAGTCTGACATTCA, AACAAAGTCTGACATTCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNUSAP1_494_ORF_1
0.8632
-0.007587973
0.475454741
498
ORF sequence:
ATGAAAGGAACTGATAGTAGTAACTTCCAAAATCAAGAAAATCAGGAAAATCAAGACCCCAGGGATACAGCAGAAGTTCCTTCTCTGCCGGAGCAGAGGCCAGAGGACGGCAATGCGGCTTCTTCAGGAGAAGGAGAAGTAAATGACATTAAAGATTCAAAGAAGCCTTTAGAAAAAAGATCTCTATGCACGGATGAGTTTTCTAAACTTGGGAACAATAAAAGGACTTCAGCCACAACACCAAACTTTAAGAAGCTTCATGAGGCTCGTTTTAAGAAAATGGAATCCATTGATGAATATATTATGAGGAAAAAGAAACACCTTAAAGAACACAGTTCACTTAATGAACTAAAGCTTGACAAAAAAGGGATAGTGACCCCAGTTCCTCCAAGAGGAAGGCTCTCTGTACCCTGTACTCCTGCCAGGCAGCAGTGCCCACAAGGCCACTCAGCAACTAAAATGAATGTCAGACTTTGTTGCAGGATCATTTGGAGATGA
Peptide sequence:
MKGTDSSNFQNQENQENQDPRDTAEVPSLPEQRPEDGNAASSGEGEVNDIKDSKKPLEKRSLCTDEFSKLGNNKRTSATTPNFKKLHEARFKKMESIDEYIMRKKKHLKEHSSLNELKLDKKGIVTPVPPRGRLSVPCTPARQQCPQGHSATKMNVRLCCRIIWR
IRESfinder result
IRESfinder score
0.608355554
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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