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mmu_circSptan1_288
Basic information of circular RNA
PanCircBase ID:
mmu_circSptan1_288
mm39_Chr. Position ID:
chr2|29873171|29873772|+
Gene name:
Sptan1
Transcript:
ENSMUST00000113719.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,454
Genomic length:
601
Exon/intron sizes in nt:
1,41,147
Flanking exon/introns:
chr2:29870214-29873171|chr2:29873772-29876176
Splice length:
288
Other database IDs:
CIRCpedia: MMU_CIRCpedia_15669, circAtlas: mmu-Sptan1_0020
circBase: hsa_circ_0138068, circAtlas: hsa-SPTAN1_0021, CIRCpedia: HSA_CIRCpedia_149336
Human Ortholog IDs:
Mature spliced Sequence:
ACACGTTTAATGGAGCTGCACCGGCAGTGGGAACTGCTTTTGGAGAAGATGCGGGAGAAAGGAATCAAACTGCTGCAGGCACAGAAGCTGGTGCAGTATTTGCGGGAGTGTGAGGATGTAATGGACTGGATCAATGACAAGGAAGCAATTGTGACTTCTGAGGAGCTGGGCCAGGACCTGGAGCATGTAGAGGTGCTACAGAAGAAGTTTGAAGAGTTTCAGACTGATCTGGCTGCTCATGAAGAAAGAGTTAATGAAGTGAGCCAGTTTGCTGCCAAACTCATCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACTGATCTGGCTGCTCATGA
59.86
GCCTGCAGCAGTTTGATTCC
60.11
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGACTGATCTGGCTGCTCATG
59.86
GCCTGCAGCAGTTTGATTCC
60.11
148
PCR template sequence:
AGAGGTGCTACAGAAGAAGTTTGAAGAGTTTCAGACTGATCTGGCTGCTCATGAAGAAAGAGTTAATGAAGTGAGCCAGTTTGCTGCCAAACTCATCCAGACACGTTTAATGGAGCTGCACCGGCAGTGGGAACTGCTTTTGGAGAAGATGCGGGAGAAAGGAATCAAACTGCTGCAGGCACAGAAGCTGGTGCAGTATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-200c-3p(1), mmu-miR-24-3p(1), mmu-miR-149-5p(1), mmu-miR-324-3p(1), mmu-miR-224-5p(1), mmu-miR-207(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CAAACTCATCCAGACACGTTTAATGG
siRNA sets
TTAAACGTGTCTGGATGAG,TAAACGTGTCTGGATGAGT,AAACGTGTCTGGATGAGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPTAN1_288_ORF_1
1.2421
0.51441608
0.962607106
567
ORF sequence:
ATGGAGCTGCACCGGCAGTGGGAACTGCTTTTGGAGAAGATGCGGGAGAAAGGAATCAAACTGCTGCAGGCACAGAAGCTGGTGCAGTATTTGCGGGAGTGTGAGGATGTAATGGACTGGATCAATGACAAGGAAGCAATTGTGACTTCTGAGGAGCTGGGCCAGGACCTGGAGCATGTAGAGGTGCTACAGAAGAAGTTTGAAGAGTTTCAGACTGATCTGGCTGCTCATGAAGAAAGAGTTAATGAAGTGAGCCAGTTTGCTGCCAAACTCATCCAGACACGTTTAATGGAGCTGCACCGGCAGTGGGAACTGCTTTTGGAGAAGATGCGGGAGAAAGGAATCAAACTGCTGCAGGCACAGAAGCTGGTGCAGTATTTGCGGGAGTGTGAGGATGTAATGGACTGGATCAATGACAAGGAAGCAATTGTGACTTCTGAGGAGCTGGGCCAGGACCTGGAGCATGTAGAGGTGCTACAGAAGAAGTTTGAAGAGTTTCAGACTGATCTGGCTGCTCATGAAGAAAGAGTTAATGAAGTGAGCCAGTTTGCTGCCAAACTCATCCAG
Peptide sequence:
MELHRQWELLLEKMREKGIKLLQAQKLVQYLRECEDVMDWINDKEAIVTSEELGQDLEHVEVLQKKFEEFQTDLAAHEERVNEVSQFAAKLIQTRLMELHRQWELLLEKMREKGIKLLQAQKLVQYLRECEDVMDWINDKEAIVTSEELGQDLEHVEVLQKKFEEFQTDLAAHEERVNEVSQFAAKLIQ
IRESfinder result
IRESfinder score
0.318950046
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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