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mmu_circFsip1_653
Basic information of circular RNA
PanCircBase ID:
mmu_circFsip1_653
mm39_Chr. Position ID:
chr2|118052806|118072216|-
Gene name:
Fsip1
Transcript:
ENSMUST00000231133.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
10,9,8,7,6
Exon/intron offsets:
0,10578,14588,18066,19317
Genomic length:
19410
Exon/intron sizes in nt:
135,156,111,158,93
Flanking exon/introns:
chr2:117967105-118052806|chr2:118072216-118078775
Splice length:
653
Other database IDs:
circBase: mmu_circ_0009205, CIRCpedia: MMU_CIRCpedia_4455, circAtlas: mmu-Fsip1_0005
Human Ortholog IDs:
Mature spliced Sequence:
CAGAGGCATTGCATTGTGAGTTTGAAGACGCCCTTTTCTCAGTGTTTCATACTCAGATTCCTCCAGAAACTTACGAAAATCTCATGGAGAAAGATTTTACCTGTGATGTGGAGAAAAATGAACCATTGATCATAACAGAAAAGCAACCATTTTCAAATACAGAAGCGATTGAGCCTAGGAGTGAAGACAGCCAGGGTTTCATTAGGCAGAACGCTGAACACAGCCAGGATTTTATTAAGCGAAACATTGAGTTGGCCAAGCATTCGAGAAGCCCAGTGGTCATGGTTGAAGGAGAGAAGAAAAGACTGGATGAGCTCCTGCAAGGCCTGGATGATGCAGACTCAGGACTCTCCAGTGCCGAGGGCGATCAGTGCGGTTGGCTGGTTCCAGGAGAAGGCTATACCCTTGCAGCCACTGAGTCTCAGCAGCTTGCTGAGATTGACATAAAGCTTCAGGAACTCTCTGTTGACTCTCCCACCATCTTCAGCCTTGAAAGTCAGAGCCATAAGGGTGATATGGAATGTGATGCCAATGAAGAAAGAAATACGGAACCAACTCCCGGAGAGAAGATACTCCGGGACCGCAAAGAGCAAAGGGACCGGGAGTCTCGGCTGAGAGCCATCGATGGCAAGCTGAAAGAGCTCAGTGAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCCCGGAGAGAAGATACTCC
60.16
ACACTGAGAAAAGGGCGTCT
59.24
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCCGGAGAGAAGATACTCC
58.49
ACACTGAGAAAAGGGCGTCT
59.24
143
PCR template sequence:
AACTCCCGGAGAGAAGATACTCCGGGACCGCAAAGAGCAAAGGGACCGGGAGTCTCGGCTGAGAGCCATCGATGGCAAGCTGAAAGAGCTCAGTGAACAGCAGAGGCATTGCATTGTGAGTTTGAAGACGCCCTTTTCTCAGTGTTTCATACTCAGATTCCTCCAGAAACTTACGAAAATCTCATGGAGAAAGATTTTAC
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-211-5p(1), mmu-miR-204-5p(1), mmu-miR-216a-5p(1), mmu-miR-431-5p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-300-3p(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTCAGTGAACAGCAGAGGCATTGCA
siRNA sets
AATGCCTCTGCTGTTCACT, ATGCCTCTGCTGTTCACTG, CAATGCCTCTGCTGTTCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFSIP1_653_ORF_1
0.9757
0.2265912
0.924941057
699
ORF sequence:
ATGGAGAAAGATTTTACCTGTGATGTGGAGAAAAATGAACCATTGATCATAACAGAAAAGCAACCATTTTCAAATACAGAAGCGATTGAGCCTAGGAGTGAAGACAGCCAGGGTTTCATTAGGCAGAACGCTGAACACAGCCAGGATTTTATTAAGCGAAACATTGAGTTGGCCAAGCATTCGAGAAGCCCAGTGGTCATGGTTGAAGGAGAGAAGAAAAGACTGGATGAGCTCCTGCAAGGCCTGGATGATGCAGACTCAGGACTCTCCAGTGCCGAGGGCGATCAGTGCGGTTGGCTGGTTCCAGGAGAAGGCTATACCCTTGCAGCCACTGAGTCTCAGCAGCTTGCTGAGATTGACATAAAGCTTCAGGAACTCTCTGTTGACTCTCCCACCATCTTCAGCCTTGAAAGTCAGAGCCATAAGGGTGATATGGAATGTGATGCCAATGAAGAAAGAAATACGGAACCAACTCCCGGAGAGAAGATACTCCGGGACCGCAAAGAGCAAAGGGACCGGGAGTCTCGGCTGAGAGCCATCGATGGCAAGCTGAAAGAGCTCAGTGAACAGCAGAGGCATTGCATTGTGAGTTTGAAGACGCCCTTTTCTCAGTGTTTCATACTCAGATTCCTCCAGAAACTTACGAAAATCTCATGGAGAAAGATTTTACCTGTGATGTGGAGAAAAATGAACCATTGA
Peptide sequence:
MEKDFTCDVEKNEPLIITEKQPFSNTEAIEPRSEDSQGFIRQNAEHSQDFIKRNIELAKHSRSPVVMVEGEKKRLDELLQGLDDADSGLSSAEGDQCGWLVPGEGYTLAATESQQLAEIDIKLQELSVDSPTIFSLESQSHKGDMECDANEERNTEPTPGEKILRDRKEQRDRESRLRAIDGKLKELSEQQRHCIVSLKTPFSQCFILRFLQKLTKISWRKILPVMWRKMNH
IRESfinder result
IRESfinder score
0.435488882
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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