top of page
mmu_circAnkrd17_357
Basic information of circular RNA
PanCircBase ID:
mmu_circAnkrd17_357
mm39_Chr. Position ID:
chr5|90412485|90413432|-
Gene name:
Ankrd17
Transcript:
ENSMUST00000014421.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
20,19
Exon/intron offsets:
0,804
Genomic length:
947
Exon/intron sizes in nt:
2,14,143
Flanking exon/introns:
chr5:90412025-90412485|chr5:90413432-90416190
Splice length:
357
Other database IDs:
circAtlas: mmu-Ankrd17_0012
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_137451
Human Ortholog IDs:
Mature spliced Sequence:
GTGGTGGAGTTGTTGTTAGCTCGCGGTGCAAATAAAGAACACAGGAATGTTTCTGATTATACACCTCTAAGCCTGGCTGCTTCTGGTGGCTATGTGAACATCATCAAAATACTGCTAAATGCAGGAGCTGAGATCAATTCAAGAACTGGCAGCAAATTGGGCATTTCTCCACTGATGTTGGCAGCTATGAATGGGCATACAGCTGCAGTTAAGCTCCTTTTAGACATGGGCTCTGACATAAATGCTCAGATAGAAACCAATCGGAACACTGCCCTTACATTAGCCTGCTTCCAAGGAAGAACTGAAGTGGTTAGCCTTCTGCTTGATCGAAAAGCAAATGTTGAACATAGGGCTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACATTAGCCTGCTTCCAAGGA
59.36
ACATAGCCACCAGAAGCAGC
60.39
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCCTTACATTAGCCTGCT
59.08
CAGCCAGGCTTAGAGGTGTA
58.8
167
PCR template sequence:
CAATCGGAACACTGCCCTTACATTAGCCTGCTTCCAAGGAAGAACTGAAGTGGTTAGCCTTCTGCTTGATCGAAAAGCAAATGTTGAACATAGGGCTAAGGTGGTGGAGTTGTTGTTAGCTCGCGGTGCAAATAAAGAACACAGGAATGTTTCTGATTATACACCTCTAAGCCTGGCTGCTTCTGGTGGCTATGTGAACA
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-34a-5p(1), mmu-miR-181b-5p(1), mmu-miR-22-3p(1), mmu-miR-27a-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACATAGGGCTAAGGTGGTGGAGTTGT
siRNA sets
AACTCCACCACCTTAGCCC, ACAACTCCACCACCTTAGC, CAACTCCACCACCTTAGCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCANKRD17_357_ORF_1
1.0346
0.07129068
0.701087589
540
ORF sequence:
ATGTTGGCAGCTATGAATGGGCATACAGCTGCAGTTAAGCTCCTTTTAGACATGGGCTCTGACATAAATGCTCAGATAGAAACCAATCGGAACACTGCCCTTACATTAGCCTGCTTCCAAGGAAGAACTGAAGTGGTTAGCCTTCTGCTTGATCGAAAAGCAAATGTTGAACATAGGGCTAAGGTGGTGGAGTTGTTGTTAGCTCGCGGTGCAAATAAAGAACACAGGAATGTTTCTGATTATACACCTCTAAGCCTGGCTGCTTCTGGTGGCTATGTGAACATCATCAAAATACTGCTAAATGCAGGAGCTGAGATCAATTCAAGAACTGGCAGCAAATTGGGCATTTCTCCACTGATGTTGGCAGCTATGAATGGGCATACAGCTGCAGTTAAGCTCCTTTTAGACATGGGCTCTGACATAAATGCTCAGATAGAAACCAATCGGAACACTGCCCTTACATTAGCCTGCTTCCAAGGAAGAACTGAAGTGGTTAGCCTTCTGCTTGATCGAAAAGCAAATGTTGAACATAGGGCTAAG
Peptide sequence:
MLAAMNGHTAAVKLLLDMGSDINAQIETNRNTALTLACFQGRTEVVSLLLDRKANVEHRAKVVELLLARGANKEHRNVSDYTPLSLAASGGYVNIIKILLNAGAEINSRTGSKLGISPLMLAAMNGHTAAVKLLLDMGSDINAQIETNRNTALTLACFQGRTEVVSLLLDRKANVEHRAK
IRESfinder result
IRESfinder score
0.585328426
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page