top of page
mmu_circIno80_387
Basic information of circular RNA
PanCircBase ID:
mmu_circIno80_387
mm39_Chr. Position ID:
chr2|119269855|119273073|-
Gene name:
Ino80
Transcript:
ENSMUST00000049920.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
14,13,12
Exon/intron offsets:
0,2238,3008
Genomic length:
3218
Exon/intron sizes in nt:
96,81,210
Flanking exon/introns:
chr2:119264689-119269855|chr2:119273073-119274927
Splice length:
387
Other database IDs:
CIRCpedia: MMU_CIRCpedia_4752, circAtlas: mmu-Ino80_0001
circBase: hsa_circ_0103462, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_14181
Human Ortholog IDs:
Mature spliced Sequence:
ACAAGGTCATTTGATGAAGATGCAAAAGAAAGTCGGGCAGCTGCCCTTAGGGCAGCAGACAAGTCTGGCTCTGGGTTTGGGGAGAGTTATAGCTTAGCAAATCCATCTATCCGGGCCGGTGAGGATATTCCGCAACCCACTATTTTCAATGGCAAGTTGAAAGGTTACCAGCTGAAAGGCATGAACTGGTTAGCAAATTTATATGAACAGGGTATTAATGGAATTCTTGCTGATGAAATGGGTCTTGGTAAAACTGTACAGAGCATTGCCCTCCTGGCCCATCTGGCTGAGAGAGAAAACATTTGGGGACCTTTCTTAATAATTTCACCTGCTTCTACACTTAATAATTGGCACCAGGAGTTTACAAGATTTGTTCCTAAATTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGAGAGAAAACATTTGGGGAC
58.6
CCCAGAGCCAGACTTGTCTG
60.04
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGAGAGAAAACATTTGGGGAC
58.6
CCAAACCCAGAGCCAGACTT
59.89
180
PCR template sequence:
TGAGAGAGAAAACATTTGGGGACCTTTCTTAATAATTTCACCTGCTTCTACACTTAATAATTGGCACCAGGAGTTTACAAGATTTGTTCCTAAATTTAAGACAAGGTCATTTGATGAAGATGCAAAAGAAAGTCGGGCAGCTGCCCTTAGGGCAGCAGACAAGTCTGGCTCTGGGTTTGGGGAGAGTTATAGCTTAGCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-10b-5p(1), mmu-miR-10a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCTAAATTTAAGACAAGGTCATTTG
siRNA sets
AAATGACCTTGTCTTAAAT, AATGACCTTGTCTTAAATT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCINO80_387_ORF_1
1.018
-0.021725798
0.696268625
594
ORF sequence:
ATGAACTGGTTAGCAAATTTATATGAACAGGGTATTAATGGAATTCTTGCTGATGAAATGGGTCTTGGTAAAACTGTACAGAGCATTGCCCTCCTGGCCCATCTGGCTGAGAGAGAAAACATTTGGGGACCTTTCTTAATAATTTCACCTGCTTCTACACTTAATAATTGGCACCAGGAGTTTACAAGATTTGTTCCTAAATTTAAGACAAGGTCATTTGATGAAGATGCAAAAGAAAGTCGGGCAGCTGCCCTTAGGGCAGCAGACAAGTCTGGCTCTGGGTTTGGGGAGAGTTATAGCTTAGCAAATCCATCTATCCGGGCCGGTGAGGATATTCCGCAACCCACTATTTTCAATGGCAAGTTGAAAGGTTACCAGCTGAAAGGCATGAACTGGTTAGCAAATTTATATGAACAGGGTATTAATGGAATTCTTGCTGATGAAATGGGTCTTGGTAAAACTGTACAGAGCATTGCCCTCCTGGCCCATCTGGCTGAGAGAGAAAACATTTGGGGACCTTTCTTAATAATTTCACCTGCTTCTACACTTAATAATTGGCACCAGGAGTTTACAAGATTTGTTCCTAAATTTAAG
Peptide sequence:
MNWLANLYEQGINGILADEMGLGKTVQSIALLAHLAERENIWGPFLIISPASTLNNWHQEFTRFVPKFKTRSFDEDAKESRAAALRAADKSGSGFGESYSLANPSIRAGEDIPQPTIFNGKLKGYQLKGMNWLANLYEQGINGILADEMGLGKTVQSIALLAHLAERENIWGPFLIISPASTLNNWHQEFTRFVPKFK
IRESfinder result
IRESfinder score
0.699808659
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page