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mmu_circAdam17_389
Basic information of circular RNA
PanCircBase ID:
mmu_circAdam17_389
mm39_Chr. Position ID:
chr12|21399785|21404014|-
Gene name:
Adam17
Transcript:
ENSMUST00000101551.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,1758,4098
Genomic length:
4229
Exon/intron sizes in nt:
1,69,89,131
Flanking exon/introns:
chr12:21397431-21399785|chr12:21404014-21411659
Splice length:
389
Other database IDs:
circAtlas: mmu-Adam17_0015
circBase: hsa_circ_0121220, circAtlas: hsa-ADAM17_0018, CIRCpedia: HSA_CIRCpedia_42664
Human Ortholog IDs:
Mature spliced Sequence:
ACATTTTAAATTATACTTGACATCAAGTACCGAACGCTTTTCACAAAACTTGAGAGTCGTGGTGGTGGACGGGAAAGAAGAAAGCGAGTACAGCGTGAAGTGGCAGAACTTCTTCAGTGGTCACGTGGTTGGTGAGCCTGACTCTAGGGTTCTAGCCCACATAGGAGATGATGATGTTACAGTGAGAATCAACACAGATGGGGCAGAATATAACGTAGAGCCACTTTGGAGGTTTGTCAATGATACTAAAGATAAACGAATGCTGGTGTATAAGTCTGAAGATATCAAGGATTTTTCACGTTTGCAGTCTCCAAAAGTATGTGGTTATTTAAATGCAGATAGTGAAGAGCTGCTTCCAAAAGGGCTCATAGACAGAGAGCCATCTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTGCTTCCAAAAGGGCTC
60.9
TCACGCTGTACTCGCTTTCT
59.4
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCTGCTTCCAAAAGGGCT
60.9
TCACGCTGTACTCGCTTTCT
59.4
141
PCR template sequence:
GATTTTTCACGTTTGCAGTCTCCAAAAGTATGTGGTTATTTAAATGCAGATAGTGAAGAGCTGCTTCCAAAAGGGCTCATAGACAGAGAGCCATCTGAAGACATTTTAAATTATACTTGACATCAAGTACCGAACGCTTTTCACAAAACTTGAGAGTCGTGGTGGTGGACGGGAAAGAAGAAAGCGAGTACAGCGTGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-26b-5p(1), mmu-miR-362-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGCCATCTGAAGACATTTTAAATTA
siRNA sets
TTAAAATGTCTTCAGATGG,TAAAATGTCTTCAGATGGC,TAATTTAAAATGTCTTCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCADAM17_389_ORF_1
0.9706
-0.040997393
0.07299988
150
ORF sequence:
ATGCTGGTGTATAAGTCTGAAGATATCAAGGATTTTTCACGTTTGCAGTCTCCAAAAGTATGTGGTTATTTAAATGCAGATAGTGAAGAGCTGCTTCCAAAAGGGCTCATAGACAGAGAGCCATCTGAAGACATTTTAAATTATACTTGA
Peptide sequence:
MLVYKSEDIKDFSRLQSPKVCGYLNADSEELLPKGLIDREPSEDILNYT
IRESfinder result
IRESfinder score
0.628492501
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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