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mmu_circEif3j1_424
Basic information of circular RNA
PanCircBase ID:
mmu_circEif3j1_424
mm39_Chr. Position ID:
chr2|121871636|121881129|+
Gene name:
Eif3j1
Transcript:
ENSMUST00000028668.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,426,6280,9331
Genomic length:
9493
Exon/intron sizes in nt:
5,59,21,15,162
Flanking exon/introns:
chr2:121859392-121871636|chr2:121881129-121882222
Splice length:
424
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_113337
Human Ortholog IDs:
Mature spliced Sequence:
GATAACTGGGATGATGATGATGATGAAAATAAAGAGGAAGCAGAAGTCAAACCAGAAGTAAAAATTTCAGAGAAGAAAAAAATAGCAGAAAAGATAAAAGAGAAAGAACGGCAGCAGAAGAAAAGGCAAGAAGAAATTAAAAAGAGGTTAGAAGAACCTGAAGAATCTAAAGTACTAACACCTGAAGAGCAATTAGCAGATAAACTCCGGCTAAAGAAATTACAGGAAGAGTCAGACCTTGAATTAGCAAAAGAAACTTTTGGTGTTAATAATACCGTTTATGGAATAGATGCTATGAACCCATCTTCAAGAGATGACTTCACAGAGTTTGGAAAGTTACTAAAAGATAAAATTACACAATATGAAAAATCACTATATTATGCCAGTTTTTTGGAAGCCTTAGTTCGGGATGTCTGTATTTCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAAAAATCACTATATTATGCCAGT
55.36
TTCTTCTCTGAAATTTTTACTTCTGGT
57.59
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAAAAATCACTATATTATGCCAGTT
56
TTCTTCTCTGAAATTTTTACTTCTGGT
57.59
140
PCR template sequence:
GAGTTTGGAAAGTTACTAAAAGATAAAATTACACAATATGAAAAATCACTATATTATGCCAGTTTTTTGGAAGCCTTAGTTCGGGATGTCTGTATTTCATGATAACTGGGATGATGATGATGATGAAAATAAAGAGGAAGCAGAAGTCAAACCAGAAGTAAAAATTTCAGAGAAGAAAAAAATAGCAGAAAAGATAAAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(2), mmu-miR-29b-1-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GTCTGTATTTCATGATAACTGGGATG
siRNA sets
AGTTATCATGAAATACAGA, CAGTTATCATGAAATACAG, GTTATCATGAAATACAGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEIF3J1_424_ORF_1
1.1366
0.112209985
0.615449413
438
ORF sequence:
ATGTCTGTATTTCATGATAACTGGGATGATGATGATGATGAAAATAAAGAGGAAGCAGAAGTCAAACCAGAAGTAAAAATTTCAGAGAAGAAAAAAATAGCAGAAAAGATAAAAGAGAAAGAACGGCAGCAGAAGAAAAGGCAAGAAGAAATTAAAAAGAGGTTAGAAGAACCTGAAGAATCTAAAGTACTAACACCTGAAGAGCAATTAGCAGATAAACTCCGGCTAAAGAAATTACAGGAAGAGTCAGACCTTGAATTAGCAAAAGAAACTTTTGGTGTTAATAATACCGTTTATGGAATAGATGCTATGAACCCATCTTCAAGAGATGACTTCACAGAGTTTGGAAAGTTACTAAAAGATAAAATTACACAATATGAAAAATCACTATATTATGCCAGTTTTTTGGAAGCCTTAGTTCGGGATGTCTGTATTTCA
Peptide sequence:
MSVFHDNWDDDDDENKEEAEVKPEVKISEKKKIAEKIKEKERQQKKRQEEIKKRLEEPEESKVLTPEEQLADKLRLKKLQEESDLELAKETFGVNNTVYGIDAMNPSSRDDFTEFGKLLKDKITQYEKSLYYASFLEALVRDVCIS
IRESfinder result
IRESfinder score
0.405286325
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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