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mmu_circInts8_235
Basic information of circular RNA
PanCircBase ID:
mmu_circInts8_235
mm39_Chr. Position ID:
chr4|11245723|11246146|-
Gene name:
Ints8
Transcript:
ENSMUST00000044616.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,5
Exon/intron offsets:
0,371
Genomic length:
423
Exon/intron sizes in nt:
183,52
Flanking exon/introns:
chr4:11241688-11245723|chr4:11246146-11247831
Splice length:
235
Other database IDs:
CIRCpedia: MMU_CIRCpedia_3373, circAtlas: mmu-Ints8_0001
circBase: hsa_circ_0137379, circAtlas: hsa-INTS8_0002, CIRCpedia: HSA_CIRCpedia_61860
Human Ortholog IDs:
Mature spliced Sequence:
CATGAATCAGATGCAACAGGAAAAAGAACTGACAGAAAACATTTTGAAAGTGCTAAAAGAACAAGCTGCTGATTGTATTTTGGTCCTGGAAGCAGCTCTGAGATTAAACAAGGATCTGTATGTTCACACGATGAGAACTCTAGACTTGCTGGCCGTGGAGCCAGGCACGGTGAATGGGGAGACTGAGAACTCTACGGCTGGGTTGAAAATCAGAACTGAGGAGATGCAGTGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGTGAATGGGGAGACTGAG
59.82
AGCTGCTTCCAGGACCAAAA
59.81
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGTGAATGGGGAGACTGAG
59.82
GAGCTGCTTCCAGGACCAAA
60.25
166
PCR template sequence:
AACTCTAGACTTGCTGGCCGTGGAGCCAGGCACGGTGAATGGGGAGACTGAGAACTCTACGGCTGGGTTGAAAATCAGAACTGAGGAGATGCAGTGCCAGCATGAATCAGATGCAACAGGAAAAAGAACTGACAGAAAACATTTTGAAAGTGCTAAAAGAACAAGCTGCTGATTGTATTTTGGTCCTGGAAGCAGCTCTG
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-149-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GATGCAGTGCCAGCATGAATCAGATG
siRNA sets
CATCTGATTCATGCTGGCA, CTGATTCATGCTGGCACTG, ATCTGATTCATGCTGGCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCINTS8_235_ORF_1
1.0203
0.117397802
0.338827657
306
ORF sequence:
ATGAATCAGATGCAACAGGAAAAAGAACTGACAGAAAACATTTTGAAAGTGCTAAAAGAACAAGCTGCTGATTGTATTTTGGTCCTGGAAGCAGCTCTGAGATTAAACAAGGATCTGTATGTTCACACGATGAGAACTCTAGACTTGCTGGCCGTGGAGCCAGGCACGGTGAATGGGGAGACTGAGAACTCTACGGCTGGGTTGAAAATCAGAACTGAGGAGATGCAGTGCCAGCATGAATCAGATGCAACAGGAAAAAGAACTGACAGAAAACATTTTGAAAGTGCTAAAAGAACAAGCTGCTGA
Peptide sequence:
MNQMQQEKELTENILKVLKEQAADCILVLEAALRLNKDLYVHTMRTLDLLAVEPGTVNGETENSTAGLKIRTEEMQCQHESDATGKRTDRKHFESAKRTSC
IRESfinder result
IRESfinder score
0.383085457
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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