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mmu_circN4bp2_353
Basic information of circular RNA
PanCircBase ID:
mmu_circN4bp2_353
mm39_Chr. Position ID:
chr5|65967106|65972213|+
Gene name:
N4bp2
Transcript:
ENSMUST00000201489.4
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
13,14,15
Exon/intron offsets:
0,2199,4988
Genomic length:
5107
Exon/intron sizes in nt:
4,61,88,119
Flanking exon/introns:
chr5:65966583-65967106|chr5:65972213-65974504
Splice length:
353
Other database IDs:
circAtlas: mmu-N4bp2_0015
Human Ortholog IDs:
Mature spliced Sequence:
GAGCGACAGAGACAGGAGGAGGTTTCTCGAGGCAAGCGCACACAAGATCCTTTGCTGGCTGGACATACTGGTCTTGATAATTTTGAACAAAAATCATCTCAGAAAACAGGCAAAAGGTTATTGAAGACTTTAGCAGCACCTGAGACCCTGGATCACTGGAACACTCAAACAAAAAAAGTTTCACTTCGAGAAATAATGTCAGAAGAAATTGCCTTACAGGAGAAACATGACTTGAAAAGGGAGACACTTATGTTTGAAAAAGACTGTGCCACAAAACTAAAGGAAAAGCAGCTCTTTAAAATATTTCCAGCCATTAATCAAAATTTCCTGGTGGACATTTTCAAAGATCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGTGCCACAAAACTAAAGGA
58.37
GTCCAGCCAGCAAAGGATCT
60.03
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGTGCCACAAAACTAAAGGA
58.37
CCAGTATGTCCAGCCAGCAA
60.04
162
PCR template sequence:
TTGAAAAAGACTGTGCCACAAAACTAAAGGAAAAGCAGCTCTTTAAAATATTTCCAGCCATTAATCAAAATTTCCTGGTGGACATTTTCAAAGATCACAGGAGCGACAGAGACAGGAGGAGGTTTCTCGAGGCAAGCGCACACAAGATCCTTTGCTGGCTGGACATACTGGTCTTGATAATTTTGAACAAAAATCATCTC
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-211-5p(1), mmu-miR-204-5p(1), mmu-miR-207(1), mmu-miR-5101(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAAAGATCACAGGAGCGACAGAGAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCN4BP2_353_ORF_1
1.0296
-0.033577094
0.190433517
282
ORF sequence:
ATGTCAGAAGAAATTGCCTTACAGGAGAAACATGACTTGAAAAGGGAGACACTTATGTTTGAAAAAGACTGTGCCACAAAACTAAAGGAAAAGCAGCTCTTTAAAATATTTCCAGCCATTAATCAAAATTTCCTGGTGGACATTTTCAAAGATCACAGGAGCGACAGAGACAGGAGGAGGTTTCTCGAGGCAAGCGCACACAAGATCCTTTGCTGGCTGGACATACTGGTCTTGATAATTTTGAACAAAAATCATCTCAGAAAACAGGCAAAAGGTTATTGA
Peptide sequence:
MSEEIALQEKHDLKRETLMFEKDCATKLKEKQLFKIFPAINQNFLVDIFKDHRSDRDRRRFLEASAHKILCWLDILVLIILNKNHLRKQAKGY
IRESfinder result
IRESfinder score
0.709780379
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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