top of page
mmu_circSash1_342
Basic information of circular RNA
PanCircBase ID:
mmu_circSash1_342
mm39_Chr. Position ID:
chr10|8659961|8690221|-
Gene name:
Sash1
Transcript:
ENSMUST00000015449.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,6,5,4,3
Exon/intron offsets:
0,2150,5363,30043,30209
Genomic length:
30260
Exon/intron sizes in nt:
113,87,41,50,51
Flanking exon/introns:
chr10:8656384-8659961|chr10:8690221-8726106
Splice length:
342
Other database IDs:
circBase: mmu_circ_0002517, circAtlas: mmu-Sash1_0001
circBase: hsa_circ_0130984, circAtlas: hsa-SASH1_0001, CIRCpedia: HSA_CIRCpedia_136146
Human Ortholog IDs:
Mature spliced Sequence:
GAGAAACCCGACGCCAGCCCCACGTCACTTCAGCTGCGGTCCCAGATCGAAGAGTCTCTAGGCTTCTGCAGCGCCGTGTCAACACCAGAAGTGGAAAGAAAGTACCCTCTCCATAAATCAAACTCAGAAGACGGCTGTGTAGGCAAAGGAGATTGGAAGAAGAAAAATAAATACTTCTGGCAGAATTTCCGAAAGAACCAAAAAGGAATAATGAGACAGACTTCAAAAGGAGAAGATGTGGGCTATGTAGCCAGCGAGATTACGATGAGTGACGAGGAGCGGATTCAGCTGATGATGATGGTCAAGGAGAAAATGATCACCATTGAAGAAGCGCTCGCCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTAGCCAGCGAGATTACGA
58.61
GACTCTTCGATCTGGGACCG
59.62
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTAGCCAGCGAGATTACGAT
59.05
GACTCTTCGATCTGGGACCG
59.62
153
PCR template sequence:
CTATGTAGCCAGCGAGATTACGATGAGTGACGAGGAGCGGATTCAGCTGATGATGATGGTCAAGGAGAAAATGATCACCATTGAAGAAGCGCTCGCCAGGGAGAAACCCGACGCCAGCCCCACGTCACTTCAGCTGCGGTCCCAGATCGAAGAGTCTCTAGGCTTCTGCAGCGCCGTGTCAACACCAGAAGTGGAAAGAA
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-221-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCGCTCGCCAGGGAGAAACCCGACG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSASH1_342_ORF_1
1.1647
0.411335016
0.881752469
474
ORF sequence:
ATGAGACAGACTTCAAAAGGAGAAGATGTGGGCTATGTAGCCAGCGAGATTACGATGAGTGACGAGGAGCGGATTCAGCTGATGATGATGGTCAAGGAGAAAATGATCACCATTGAAGAAGCGCTCGCCAGGGAGAAACCCGACGCCAGCCCCACGTCACTTCAGCTGCGGTCCCAGATCGAAGAGTCTCTAGGCTTCTGCAGCGCCGTGTCAACACCAGAAGTGGAAAGAAAGTACCCTCTCCATAAATCAAACTCAGAAGACGGCTGTGTAGGCAAAGGAGATTGGAAGAAGAAAAATAAATACTTCTGGCAGAATTTCCGAAAGAACCAAAAAGGAATAATGAGACAGACTTCAAAAGGAGAAGATGTGGGCTATGTAGCCAGCGAGATTACGATGAGTGACGAGGAGCGGATTCAGCTGATGATGATGGTCAAGGAGAAAATGATCACCATTGAAGAAGCGCTCGCCAGG
Peptide sequence:
MRQTSKGEDVGYVASEITMSDEERIQLMMMVKEKMITIEEALAREKPDASPTSLQLRSQIEESLGFCSAVSTPEVERKYPLHKSNSEDGCVGKGDWKKKNKYFWQNFRKNQKGIMRQTSKGEDVGYVASEITMSDEERIQLMMMVKEKMITIEEALAR
IRESfinder result
IRESfinder score
0.244318772
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page