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mmu_circSec31a_323
Basic information of circular RNA
PanCircBase ID:
mmu_circSec31a_323
mm39_Chr. Position ID:
chr5|100513589|100516211|-
Gene name:
Sec31a
Transcript:
ENSMUST00000182569.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,2563
Genomic length:
2622
Exon/intron sizes in nt:
264,59
Flanking exon/introns:
chr5:100511806-100513589|chr5:100516211-100523066
Splice length:
323
Other database IDs:
circBase: hsa_circ_0008341, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_49278
Human Ortholog IDs:
Mature spliced Sequence:
GTCCTCAGAATGGTTGGAATGATCCTCCAGCTCTGAACAGAGTGCCGAAGAAGAAGAAGATGCCTGAAAACTTCATGCCTCCTGTTCCCATTACGTCACCAATCATGAACCCTTCGGGTGATCCCCAGTCACAGGGGCTGCAGCAGCAGCCTTCAACTCCAGGGCCGCTGTCAAGCCACGCCTCCTTCCCACAGCAGCACCTAGCGGGCGGCCAGCCCTTCCATGGTGTACAGCAGCCTCTTGCTCAGACAGGCATGCCGCCGTCCTTCTCAAAGCCCAACACTGAAGGGGCTCCAGGAGCTCCCATTGGAAACACCATCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTGTACAGCAGCCTCTTG
59.96
GCACTCTGTTCAGAGCTGGA
59.68
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTGTACAGCAGCCTCTTG
59.96
TTCGGCACTCTGTTCAGAGC
60.32
149
PCR template sequence:
TGGTGTACAGCAGCCTCTTGCTCAGACAGGCATGCCGCCGTCCTTCTCAAAGCCCAACACTGAAGGGGCTCCAGGAGCTCCCATTGGAAACACCATCCAGGTCCTCAGAATGGTTGGAATGATCCTCCAGCTCTGAACAGAGTGCCGAAGAAGAAGAAGATGCCTGAAAACTTCATGCCTCCTGTTCCCATTACGTCACC
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-134-5p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
AAACACCATCCAGGTCCTCAGAATGG
siRNA sets
ATTCTGAGGACCTGGATGG, TTCTGAGGACCTGGATGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSEC31A_323_ORF_1
1.1095
0.204382522
0.451550739
300
ORF sequence:
ATGCCTGAAAACTTCATGCCTCCTGTTCCCATTACGTCACCAATCATGAACCCTTCGGGTGATCCCCAGTCACAGGGGCTGCAGCAGCAGCCTTCAACTCCAGGGCCGCTGTCAAGCCACGCCTCCTTCCCACAGCAGCACCTAGCGGGCGGCCAGCCCTTCCATGGTGTACAGCAGCCTCTTGCTCAGACAGGCATGCCGCCGTCCTTCTCAAAGCCCAACACTGAAGGGGCTCCAGGAGCTCCCATTGGAAACACCATCCAGGTCCTCAGAATGGTTGGAATGATCCTCCAGCTCTGA
Peptide sequence:
MPENFMPPVPITSPIMNPSGDPQSQGLQQQPSTPGPLSSHASFPQQHLAGGQPFHGVQQPLAQTGMPPSFSKPNTEGAPGAPIGNTIQVLRMVGMILQL
IRESfinder result
IRESfinder score
0.411264146
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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