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mmu_circElp3_376
Basic information of circular RNA
PanCircBase ID:
mmu_circElp3_376
mm39_Chr. Position ID:
chr14|65784582|65786934|-
Gene name:
Elp3
Transcript:
ENSMUST00000225355.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
14,13,12
Exon/intron offsets:
0,732,2286
Genomic length:
2352
Exon/intron sizes in nt:
82,228,66
Flanking exon/introns:
chr14:65769049-65784582|chr14:65786934-65788833
Splice length:
376
Other database IDs:
circBase: mmu_circ_0005378, CIRCpedia: MMU_CIRCpedia_26193, circAtlas: mmu-Elp3_0003
circAtlas: hsa-ELP3_0008, CIRCpedia: HSA_CIRCpedia_60769
Human Ortholog IDs:
Mature spliced Sequence:
TGCCGTGATGTGAGAACCAGGGAGGTTGGAATCCAAGAAATTCATCACAGAGTGCGGCCATACCAGGTCGAGTTGGTACGGAGAGATTATGTTGCCAATGGTGGCTGGGAAACTTTCCTGTCCTACGAAGATCCTGATCAGGACATTCTGATTGGCCTCCTAAGGCTGCGGAAGTGCTCTGAGGAAACCTTCCGGTTTGAACTGGGTGGAGGTGTTTCCATAGTCCGAGAGCTACACGTGTATGGAAGTGTGGTCCCTGTGAGCAGCCGGGATCCCACTAAATTTCAGCATCAGGGGTTCGGCATGCTGCTGATGGAAGAGGCAGAGAGAATCGCTCGGGAAGAGCATGGATCTGGGAAAATGGCAGTTATATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGCAGAGAGAATCGCTCG
60.32
TCTCCGTACCAACTCGACCT
59.96
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTCAGCATCAGGGGTTCGG
60.32
TCTCCGTACCAACTCGACCT
59.96
178
PCR template sequence:
ACTAAATTTCAGCATCAGGGGTTCGGCATGCTGCTGATGGAAGAGGCAGAGAGAATCGCTCGGGAAGAGCATGGATCTGGGAAAATGGCAGTTATATCAGTGCCGTGATGTGAGAACCAGGGAGGTTGGAATCCAAGAAATTCATCACAGAGTGCGGCCATACCAGGTCGAGTTGGTACGGAGAGATTATGTTGCCAATG
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-182-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGTTATATCAGTGCCGTGATGTGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCELP3_376_ORF_1
1.0787
0.266456968
0.680776642
405
ORF sequence:
ATGGATCTGGGAAAATGGCAGTTATATCAGTGCCGTGATGTGAGAACCAGGGAGGTTGGAATCCAAGAAATTCATCACAGAGTGCGGCCATACCAGGTCGAGTTGGTACGGAGAGATTATGTTGCCAATGGTGGCTGGGAAACTTTCCTGTCCTACGAAGATCCTGATCAGGACATTCTGATTGGCCTCCTAAGGCTGCGGAAGTGCTCTGAGGAAACCTTCCGGTTTGAACTGGGTGGAGGTGTTTCCATAGTCCGAGAGCTACACGTGTATGGAAGTGTGGTCCCTGTGAGCAGCCGGGATCCCACTAAATTTCAGCATCAGGGGTTCGGCATGCTGCTGATGGAAGAGGCAGAGAGAATCGCTCGGGAAGAGCATGGATCTGGGAAAATGGCAGTTATATCA
Peptide sequence:
MDLGKWQLYQCRDVRTREVGIQEIHHRVRPYQVELVRRDYVANGGWETFLSYEDPDQDILIGLLRLRKCSEETFRFELGGGVSIVRELHVYGSVVPVSSRDPTKFQHQGFGMLLMEEAERIAREEHGSGKMAVIS
IRESfinder result
IRESfinder score
0.304066335
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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