top of page
mmu_ciZdhhc16_640
Basic information of circular RNA
PanCircBase ID:
mmu_ciZdhhc16_640
mm39_Chr. Position ID:
chr19|41927275|41927915|+
Gene name:
Zdhhc16
Transcript:
ENSMUST00000026154.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
640
Exon/intron sizes in nt:
640
Flanking exon/introns:
chr19:41927275-41928038
Splice length:
640
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATCCTTTTGTTCTCTTCAGCCAAGACCTTCTGTTTTACCCTCAGAGCACTGCACGGGGTTCATAGTCATGAGCTCCATACTTTCTCACTAGCATCAATCAATCCAGAGAGTACTGGCTCATGAGAAGTTAGGCATTGGGGAGCCGGGGGGCTTACCATTTTTTGGGAGGAGCAGAATGTTTACAGGCTTTCTAGAATGGATTTTTGTAGGAGAAAGGAATTTTCTGGCATGTCTCTTGTGGAGAATCAAAAGGTGTTTGGGCATCTGTGGCTGAAGGTGCCAGCCAGAACTGTGGGTCCCATTTTGACTTTCTTTTTTTTTTTTTTTTTTTTAGATTTATTTATTTATTATATGTAAGTTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGCGTCAGATCTTGTTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCCGGACCTTTGGAAGAGCAGTTGGGTGCTCTTACTCACTGAGCCATCTCACCAGCCCCCCATTTTGACTTTCTATGCAGATGGCTAACCTGAGTTAGGTTGAATATTTGCAGGTGGTTAAGATTTCCTGGTGGCATCTAGAAGCCCTGAAAAGCTTAGACAATTTTTACCTTAACCTTGGGAAACT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTTAAGATTTCCTGGTGGCA
59.89
ACTATGAACCCCGTGCAGTG
60.04
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTTAAGATTTCCTGGTGGCA
59.89
TGACTATGAACCCCGTGCAG
59.75
143
PCR template sequence:
ACCTGAGTTAGGTTGAATATTTGCAGGTGGTTAAGATTTCCTGGTGGCATCTAGAAGCCCTGAAAAGCTTAGACAATTTTTACCTTAACCTTGGGAAACTGTATCCTTTTGTTCTCTTCAGCCAAGACCTTCTGTTTTACCCTCAGAGCACTGCACGGGGTTCATAGTCATGAGCTCCATACTTTCTCACTAGCATCAAT
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-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-30c-5p(1), mmu-miR-138-5p(1), mmu-miR-24-3p(1), mmu-miR-30b-5p(1), mmu-miR-153-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
ACCTTGGGAAACTGTATCCTTTTGTT
siRNA sets
ACAAAAGGATACAGTTTCC, AACAAAAGGATACAGTTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.875597953
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page