top of page
mmu_circSnx29_383
Basic information of circular RNA
PanCircBase ID:
mmu_circSnx29_383
mm39_Chr. Position ID:
chr16|11263028|11389669|+
Gene name:
Snx29
Transcript:
ENSMUST00000180792.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
12,13,14,15
Exon/intron offsets:
0,2215,65795,126534
Genomic length:
126641
Exon/intron sizes in nt:
6,41,29,83,107
Flanking exon/introns:
chr16:11238647-11263028|chr16:11389669-11449321
Splice length:
383
Other database IDs:
circAtlas: mmu-Snx29_0017
Human Ortholog IDs:
Mature spliced Sequence:
ATGAACTGCGCCAAGCCATCGTGGCCATGATGAACAGAAAGGATGAATTGGAAGAAGAGAATGGGTCACTGCGGAATCTCCTTGACGGTGAGATGGAGCACTCAGCAGCGCTCCGGCAAGAGGTGGATGCCCTGAGGCGGAAGGTGACAGAACAGCAGGAGCGCCATGCCACAAAGGTCCAGGCACTGGCCAGAGAAAACGAGGTGCTCAAAGTCCAGCTGAAGAAATATGTAGGAGCTGTCCAGATGCTGAAAAGAGAAGGTCAAACAGCTGAAGCTGTACCTAGTCTCTGGAACGTTGATGCAGAAGTCACAGTCCCTGAACAGAAGCCTGGGGAAGTTGCTGAGGAACTAGCAAGCTCCTACGAGAGGAAACTCATTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAAGCCTGGGGAAGTTG
59.89
CGTCAAGGAGATTCCGCAGT
60.11
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAAGCCTGGGGAAGTTG
59.89
GAGATTCCGCAGTGACCCAT
59.82
141
PCR template sequence:
TAGTCTCTGGAACGTTGATGCAGAAGTCACAGTCCCTGAACAGAAGCCTGGGGAAGTTGCTGAGGAACTAGCAAGCTCCTACGAGAGGAAACTCATTGAGATGAACTGCGCCAAGCCATCGTGGCCATGATGAACAGAAAGGATGAATTGGAAGAAGAGAATGGGTCACTGCGGAATCTCCTTGACGGTGAGATGGAGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-370-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAACTCATTGAGATGAACTGCGCCA
siRNA sets
GTTCATCTCAATGAGTTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSNX29_383_ORF_1
1.0618
0.366288172
0.731815552
387
ORF sequence:
ATGATGAACAGAAAGGATGAATTGGAAGAAGAGAATGGGTCACTGCGGAATCTCCTTGACGGTGAGATGGAGCACTCAGCAGCGCTCCGGCAAGAGGTGGATGCCCTGAGGCGGAAGGTGACAGAACAGCAGGAGCGCCATGCCACAAAGGTCCAGGCACTGGCCAGAGAAAACGAGGTGCTCAAAGTCCAGCTGAAGAAATATGTAGGAGCTGTCCAGATGCTGAAAAGAGAAGGTCAAACAGCTGAAGCTGTACCTAGTCTCTGGAACGTTGATGCAGAAGTCACAGTCCCTGAACAGAAGCCTGGGGAAGTTGCTGAGGAACTAGCAAGCTCCTACGAGAGGAAACTCATTGAGATGAACTGCGCCAAGCCATCGTGGCCATGA
Peptide sequence:
MMNRKDELEEENGSLRNLLDGEMEHSAALRQEVDALRRKVTEQQERHATKVQALARENEVLKVQLKKYVGAVQMLKREGQTAEAVPSLWNVDAEVTVPEQKPGEVAEELASSYERKLIEMNCAKPSWP
IRESfinder result
IRESfinder score
0.119674028
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page