top of page
mmu_circSeptin2_332_2
Basic information of circular RNA
PanCircBase ID:
mmu_circSeptin2_332_2
mm39_Chr. Position ID:
chr1|93428179|93431240|+
Gene name:
Septin2
Transcript:
ENSMUST00000027495.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,9,10
Exon/intron offsets:
0,1049,2977
Genomic length:
3061
Exon/intron sizes in nt:
102,146,84
Flanking exon/introns:
chr1:93427112-93428179|chr1:93431240-93433265
Splice length:
332
Other database IDs:
circAtlas: mmu-Sept2_0006
circBase: hsa_circ_0059061, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_40342
Human Ortholog IDs:
Mature spliced Sequence:
ATTTTGGATGAAATTGAAGAGCATAGCATTAAAATCTATCACTTACCTGATGCAGAGTCAGATGAAGATGAAGACTTTAAGGAGCAGACTAGACTCCTCAAGGCCAGTATCCCATTCTCTGTGGTTGGCTCCAACCAGTTGATTGAAGCCAAAGGCAAGAAGGTTAGAGGCCGTCTCTACCCATGGGGTGTTGTAGAGGTGGAGAACCCAGAACACAATGACTTTCTGAAGCTGAGAACGATGCTCATCACCCACATGCAGGACCTACAGGAAGTGACCCAAGACCTTCACTATGAAAACTTCCGTTCTGAGAGGCTGAAGAGAGGCGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGCTCATCACCCACATGCA
60.03
TCATCTGACTCTGCATCAGGT
58.54
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCATCACCCACATGCAGGAC
60.04
TCATCTGACTCTGCATCAGGT
58.54
153
PCR template sequence:
TGAGAACGATGCTCATCACCCACATGCAGGACCTACAGGAAGTGACCCAAGACCTTCACTATGAAAACTTCCGTTCTGAGAGGCTGAAGAGAGGCGGCAGATTTTGGATGAAATTGAAGAGCATAGCATTAAAATCTATCACTTACCTGATGCAGAGTCAGATGAAGATGAAGACTTTAAGGAGCAGACTAGACTCCTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-217-5p(1), mmu-miR-297a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAGAGGCGGCAGATTTTGGATGAAA
siRNA sets
TTTCATCCAAAATCTGCCG, TTCATCCAAAATCTGCCGC, TCATCCAAAATCTGCCGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSEPTIN2_332_2_ORF_1
1.1095
0.041596249
0.208060074
234
ORF sequence:
ATGCTCATCACCCACATGCAGGACCTACAGGAAGTGACCCAAGACCTTCACTATGAAAACTTCCGTTCTGAGAGGCTGAAGAGAGGCGGCAGATTTTGGATGAAATTGAAGAGCATAGCATTAAAATCTATCACTTACCTGATGCAGAGTCAGATGAAGATGAAGACTTTAAGGAGCAGACTAGACTCCTCAAGGCCAGTATCCCATTCTCTGTGGTTGGCTCCAACCAGTTGA
Peptide sequence:
MLITHMQDLQEVTQDLHYENFRSERLKRGGRFWMKLKSIALKSITYLMQSQMKMKTLRSRLDSSRPVSHSLWLAPTS
IRESfinder result
IRESfinder score
0.540307705
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page