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mmu_circSeptin3_809
Basic information of circular RNA
PanCircBase ID:
mmu_circSeptin3_809
mm39_Chr. Position ID:
chr15|82167259|82175032|+
Gene name:
Septin3
Transcript:
ENSMUST00000238416.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
4,5,6,7,8,9,10,11
Exon/intron offsets:
0,618,1313,2728,3378,6136,7345,7679
Genomic length:
7773
Exon/intron sizes in nt:
129,82,138,118,96,100,52,94
Flanking exon/introns:
chr15:82163807-82167259|chr15:82175032-82175453
Splice length:
809
Other database IDs:
circAtlas: mmu-Sept3_0001
circBase: hsa_circ_0116660, circAtlas: hsa-SEPT3_0001, CIRCpedia: HSA_CIRCpedia_121964
Human Ortholog IDs:
Mature spliced Sequence:
GCCAGAGTGGACTGGGCAAGTCAACACTGGTCAACACCCTCTTCAAGTCCCAAGTGAGCCGAAAGGCCTCCAGCTGGAACCGGGAGGAGAAGATCCCCAAGACAGTGGAGATCAAAGCGATTGGGCATGTGATAGAGGAAGGTGGTGTCAAAATGAAGCTGACAGTCATCGACACACCAGGCTTTGGAGACCAGATCAACAATGAAAACTGCTGGGAGCCCATTGAGAAATACATCAACGAACAGTACGAAAAGTTCCTGAAGGAGGAGGTGAACATTGCCAGGAAGAAACGCATCCCTGACACCCGTGTCCACTGCTGCCTCTACTTCATCTCCCCGACAGGACACTCCTTACGACCACTGGATCTTGAGTTCATGAAACATCTCAGCAAAGTGGTGAACATCATTCCTGTCATTGCCAAGGCTGATACCATGACCCTGGAGGAGAAGTCGGAATTCAAGCAGAGGGTTCGCAAAGAACTTGAAGTAAACGGCATTGAATTCTACCCTCAGAAGGAATTTGATGAGGATTTGGAGGACAAGACAGAGAATGACAAAATCCGGCAGGAGAGCATGCCCTTCGCCGTGGTGGGGAGTGACAAGGAGTACCAAGTGAACGGCAAGAGGGTCCTCGGGAGGAAAACACCCTGGGGGATCATCGAAGTGGAAAACCTCAACCACTGTGAGTTTGCCCTGCTCCGAGACTTCGTCATCAGGACTCACCTCCAGGACCTCAAAGAAGTAACACACAACATCCACTATGAGACTTACAGGGCCAAGAGGCTCAATGACAATGGAGGCCTCCCTCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCACCTCCAGGACCTCAA
59.81
CTTTCGGCTCACTTGGGACT
59.96
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACTCACCTCCAGGACCTCA
60.25
CTTTCGGCTCACTTGGGACT
59.96
159
PCR template sequence:
CATCAGGACTCACCTCCAGGACCTCAAAGAAGTAACACACAACATCCACTATGAGACTTACAGGGCCAAGAGGCTCAATGACAATGGAGGCCTCCCTCCGGCCAGAGTGGACTGGGCAAGTCAACACTGGTCAACACCCTCTTCAAGTCCCAAGTGAGCCGAAAGGCCTCCAGCTGGAACCGGGAGGAGAAGATCCCCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(2), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-199a-5p(1), mmu-miR-143-3p(1), mmu-miR-182-5p(1), mmu-miR-1198-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGCCTCCCTCCGGCCAGAGTGGACT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSEPTIN3_809_ORF_1
1.2931
0.475505843
0.985519711
714
ORF sequence:
ATGAAGCTGACAGTCATCGACACACCAGGCTTTGGAGACCAGATCAACAATGAAAACTGCTGGGAGCCCATTGAGAAATACATCAACGAACAGTACGAAAAGTTCCTGAAGGAGGAGGTGAACATTGCCAGGAAGAAACGCATCCCTGACACCCGTGTCCACTGCTGCCTCTACTTCATCTCCCCGACAGGACACTCCTTACGACCACTGGATCTTGAGTTCATGAAACATCTCAGCAAAGTGGTGAACATCATTCCTGTCATTGCCAAGGCTGATACCATGACCCTGGAGGAGAAGTCGGAATTCAAGCAGAGGGTTCGCAAAGAACTTGAAGTAAACGGCATTGAATTCTACCCTCAGAAGGAATTTGATGAGGATTTGGAGGACAAGACAGAGAATGACAAAATCCGGCAGGAGAGCATGCCCTTCGCCGTGGTGGGGAGTGACAAGGAGTACCAAGTGAACGGCAAGAGGGTCCTCGGGAGGAAAACACCCTGGGGGATCATCGAAGTGGAAAACCTCAACCACTGTGAGTTTGCCCTGCTCCGAGACTTCGTCATCAGGACTCACCTCCAGGACCTCAAAGAAGTAACACACAACATCCACTATGAGACTTACAGGGCCAAGAGGCTCAATGACAATGGAGGCCTCCCTCCGGCCAGAGTGGACTGGGCAAGTCAACACTGGTCAACACCCTCTTCAAGTCCCAAGTGA
Peptide sequence:
MKLTVIDTPGFGDQINNENCWEPIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLDLEFMKHLSKVVNIIPVIAKADTMTLEEKSEFKQRVRKELEVNGIEFYPQKEFDEDLEDKTENDKIRQESMPFAVVGSDKEYQVNGKRVLGRKTPWGIIEVENLNHCEFALLRDFVIRTHLQDLKEVTHNIHYETYRAKRLNDNGGLPPARVDWASQHWSTPSSSPK
IRESfinder result
IRESfinder score
0.416782096
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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