top of page
mmu_circAhi1_272
Basic information of circular RNA
PanCircBase ID:
mmu_circAhi1_272
mm39_Chr. Position ID:
chr10|20862868|20864583|+
Gene name:
Ahi1
Transcript:
ENSMUST00000105525.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
14,15
Exon/intron offsets:
0,1574
Genomic length:
1715
Exon/intron sizes in nt:
131,141
Flanking exon/introns:
chr10:20860322-20862868|chr10:20864583-20876404
Splice length:
272
Other database IDs:
CIRCpedia: MMU_CIRCpedia_217571
circAtlas: hsa-AHI1_0079, CIRCpedia: HSA_CIRCpedia_146846
Human Ortholog IDs:
Mature spliced Sequence:
ATTGGCAGCCAGGAAATTTGTGGGTGCAGCAAATTACCGTGAGAAGATCCATAGCACCTTGACGCCGTGCGGGACTCTGCTCTTTTCTGGGAGTGAGGATGGGATAGTATACGTTTGGAACCCAGAGACAGGAGAACAAGTGGCAATGTACTCTGACCTGCCATTCAAGTCCACAATCCGAGACATCTCTTACCACCCCCTGGAGAATATGGTTGCCTTCTGTGCCTTTGGACAGAGCGAGCCGATTCTTCTTTATATTTATGATTTCCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTGCCTTCTGTGCCTTTGG
59.97
AGAAAAGAGCAGAGTCCCGC
60.04
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTTGCCTTCTGTGCCTTTG
59.97
AGAAAAGAGCAGAGTCCCGC
60.04
150
PCR template sequence:
ACAATCCGAGACATCTCTTACCACCCCCTGGAGAATATGGTTGCCTTCTGTGCCTTTGGACAGAGCGAGCCGATTCTTCTTTATATTTATGATTTCCAGGATTGGCAGCCAGGAAATTTGTGGGTGCAGCAAATTACCGTGAGAAGATCCATAGCACCTTGACGCCGTGCGGGACTCTGCTCTTTTCTGGGAGTGAGGAT
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-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TATGATTTCCAGGATTGGCAGCCAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAHI1_272_ORF_1
0.667
0.101513847
0.096516129
189
ORF sequence:
ATGTACTCTGACCTGCCATTCAAGTCCACAATCCGAGACATCTCTTACCACCCCCTGGAGAATATGGTTGCCTTCTGTGCCTTTGGACAGAGCGAGCCGATTCTTCTTTATATTTATGATTTCCAGGATTGGCAGCCAGGAAATTTGTGGGTGCAGCAAATTACCGTGAGAAGATCCATAGCACCTTGA
Peptide sequence:
MYSDLPFKSTIRDISYHPLENMVAFCAFGQSEPILLYIYDFQDWQPGNLWVQQITVRRSIAP
IRESfinder result
IRESfinder score
0.793112434
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page