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mmu_circ2700049A03Rik_545
Basic information of circular RNA
PanCircBase ID:
mmu_circ2700049A03Rik_545
mm39_Chr. Position ID:
chr12|71195017|71199571|+
Gene name:
2700049A03Rik
Transcript:
ENSMUST00000149564.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,6,7
Exon/intron offsets:
0,1999,4406
Genomic length:
4554
Exon/intron sizes in nt:
17,52,22,148
Flanking exon/introns:
chr12:71188893-71195017|chr12:71199571-71201535
Splice length:
545
Other database IDs:
CIRCpedia: MMU_CIRCpedia_217469, circAtlas: mmu-2700049A03Rik_0022
circAtlas: hsa-KIAA0586_0050, CIRCpedia: HSA_CIRCpedia_113392
Human Ortholog IDs:
Mature spliced Sequence:
AGCTCAAAGCATGCCTGTTTTTAAGGCGGTGAAAGTACATCTTTTTGAAGACACGAGTACAGAAAAGAATACTGTTGCTCAGGAGACTGAAACTCCACCCAATAGAATTGATTCAGCTACAACTGTGGCTGCGGCAACTGCCGCTGCCATCGCAACAGCAGCTCCTTTGATCAAGGTACAGAGTGATTTGGAGGCAAAGGTTAATTGTGTTGGAGAGTTACTTACTAAGTTACAGGAGACTGATAAACAGTTACAGCGCGTGACAGAGCACCAAGCCAGCGTTCAGAGTAAGCAAGAGAAAGTGCACTGTCATGACCACGACAAGCAGATGAACGCGTTCATGGAGCAGCATATCAGGCACCTTGAAAAACTACAGCAACAGCAGATAGACATTCAGACCCATTTTATTGATGCTGCACTCAAGGCTAGCAGTCTTCAACTTGGCATGTCCACGTCCAGAGCAGTGGGGAAGTATTCTGGAAAACTGGGAAGCCCTAGTGTTGGGAGCAGTGTTTTTTCACACAACACATTTGTTTCTAAACGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGGAAGCCCTAGTGTTGG
60.04
TCAGTCTCCTGAGCAACAGT
58.29
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGGAAAACTGGGAAGCCC
59.89
TCAGTCTCCTGAGCAACAGT
58.29
160
PCR template sequence:
ATGTCCACGTCCAGAGCAGTGGGGAAGTATTCTGGAAAACTGGGAAGCCCTAGTGTTGGGAGCAGTGTTTTTTCACACAACACATTTGTTTCTAAACGAGAGCTCAAAGCATGCCTGTTTTTAAGGCGGTGAAAGTACATCTTTTTGAAGACACGAGTACAGAAAAGAATACTGTTGCTCAGGAGACTGAAACTCCACCC
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-200a-3p(1), mmu-miR-103-3p(1), mmu-miR-150-5p(1), mmu-miR-148a-3p(1), mmu-miR-18a-5p(1), mmu-miR-107-3p(1), mmu-miR-452-3p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTCTAAACGAGAGCTCAAAGCATG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC2700049A03RIK_545_ORF_1
1.1768
0.111066016
0.812389815
567
ORF sequence:
ATGCCTGTTTTTAAGGCGGTGAAAGTACATCTTTTTGAAGACACGAGTACAGAAAAGAATACTGTTGCTCAGGAGACTGAAACTCCACCCAATAGAATTGATTCAGCTACAACTGTGGCTGCGGCAACTGCCGCTGCCATCGCAACAGCAGCTCCTTTGATCAAGGTACAGAGTGATTTGGAGGCAAAGGTTAATTGTGTTGGAGAGTTACTTACTAAGTTACAGGAGACTGATAAACAGTTACAGCGCGTGACAGAGCACCAAGCCAGCGTTCAGAGTAAGCAAGAGAAAGTGCACTGTCATGACCACGACAAGCAGATGAACGCGTTCATGGAGCAGCATATCAGGCACCTTGAAAAACTACAGCAACAGCAGATAGACATTCAGACCCATTTTATTGATGCTGCACTCAAGGCTAGCAGTCTTCAACTTGGCATGTCCACGTCCAGAGCAGTGGGGAAGTATTCTGGAAAACTGGGAAGCCCTAGTGTTGGGAGCAGTGTTTTTTCACACAACACATTTGTTTCTAAACGAGAGCTCAAAGCATGCCTGTTTTTAAGGCGGTGA
Peptide sequence:
MPVFKAVKVHLFEDTSTEKNTVAQETETPPNRIDSATTVAAATAAAIATAAPLIKVQSDLEAKVNCVGELLTKLQETDKQLQRVTEHQASVQSKQEKVHCHDHDKQMNAFMEQHIRHLEKLQQQQIDIQTHFIDAALKASSLQLGMSTSRAVGKYSGKLGSPSVGSSVFSHNTFVSKRELKACLFLRR
IRESfinder result
IRESfinder score
0.56276684
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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