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mmu_circNipsnap2_186
Basic information of circular RNA
PanCircBase ID:
mmu_circNipsnap2_186
mm39_Chr. Position ID:
chr5|129816535|129816827|+
Gene name:
Nipsnap2
Transcript:
ENSMUST00000086046.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,246
Genomic length:
292
Exon/intron sizes in nt:
140,46
Flanking exon/introns:
chr5:129802285-129816535|chr5:129816827-129821768
Splice length:
186
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GACAGTGACATCCTCAAGTCACCGAGCTCGGGAAGACAGCTGGCTAAAGTCCTTGTTTGTCAGAAAGGTCGATCCAAGGAAAGATGCCCACTCCAACCTCCTAGCCAAAAAGGAGACGAGCAGTCTGTACAAGTTACAGTTTCACAACGTTAAGCCGGAATGCCTAGACGCATACAACAAAATTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCAAAAAGGAGACGAGCA
59.89
TTTAGCCAGCTGTCTTCCCG
60.04
132
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAAAAAGGAGACGAGCAG
59.48
TTTAGCCAGCTGTCTTCCCG
60.04
131
PCR template sequence:
CAACCTCCTAGCCAAAAAGGAGACGAGCAGTCTGTACAAGTTACAGTTTCACAACGTTAAGCCGGAATGCCTAGACGCATACAACAAAATTTGGACAGTGACATCCTCAAGTCACCGAGCTCGGGAAGACAGCTGGCTAAAGTCCTTGTTTGTCAGAAAGGTCGATCCAAGGAAAGATGCCCACTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
ACAACAAAATTTGGACAGTGACATCC
siRNA sets
ACTGTCCAAATTTTGTTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNIPSNAP2_186_ORF_1
0.6925
-0.029648401
0.058068386
180
ORF sequence:
ATGCCTAGACGCATACAACAAAATTTGGACAGTGACATCCTCAAGTCACCGAGCTCGGGAAGACAGCTGGCTAAAGTCCTTGTTTGTCAGAAAGGTCGATCCAAGGAAAGATGCCCACTCCAACCTCCTAGCCAAAAAGGAGACGAGCAGTCTGTACAAGTTACAGTTTCACAACGTTAA
Peptide sequence:
MPRRIQQNLDSDILKSPSSGRQLAKVLVCQKGRSKERCPLQPPSQKGDEQSVQVTVSQR
IRESfinder result
IRESfinder score
0.407069797
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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