top of page
mmu_ciUsp25_285
Basic information of circular RNA
PanCircBase ID:
mmu_ciUsp25_285
mm39_Chr. Position ID:
chr16|76911967|76912252|+
Gene name:
Usp25
Transcript:
ENSMUST00000023580.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
23
Exon/intron offsets:
0
Genomic length:
285
Exon/intron sizes in nt:
285
Flanking exon/introns:
chr16:76911967-76912277
Splice length:
285
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTTTGAGCAGTGCCGTTAGGCCCCAGGGAGGGGCTCGGCAGCAGAAGAGGGCTTTGTCATCTTCTGCCTGGTTTGATATTCTGGAGTCCTGCCTCCTTCACTCTATGGCCACGCCCCTCCCTCCGTTACAAGCTAGCAAGTGCACATTTCCGTTGCCATGTATGTAAAAATCAACAAAAGCCAAACTCAGATCCCCAAATGAAGGAAATTTCATGTGTTTGCCGTTGTCTCCTCTCCCATAAGAAGCCTGCAGAGGTGCCCCTTTCACCTCTCTCTGTGCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTTTGCCGTTGTCTCCT
60.11
GGCAGAAGATGACAAAGCCC
59.19
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTTTGCCGTTGTCTCCT
60.11
CAGGCAGAAGATGACAAAGCC
59.53
142
PCR template sequence:
CAAACTCAGATCCCCAAATGAAGGAAATTTCATGTGTTTGCCGTTGTCTCCTCTCCCATAAGAAGCCTGCAGAGGTGCCCCTTTCACCTCTCTCTGTGCTGTAAGTTTGAGCAGTGCCGTTAGGCCCCAGGGAGGGGCTCGGCAGCAGAAGAGGGCTTTGTCATCTTCTGCCTGGTTTGATATTCTGGAGTCCTGCCTCC
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-183-5p(1), mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTCTCTGTGCTGTAAGTTTGAGCA
siRNA sets
AAACTTACAGCACAGAGAG, ACTTACAGCACAGAGAGAG, AACTTACAGCACAGAGAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIUSP25_285_ORF_1
0.6099
-0.168470525
0.015019894
87
ORF sequence:
ATGAAGGAAATTTCATGTGTTTGCCGTTGTCTCCTCTCCCATAAGAAGCCTGCAGAGGTGCCCCTTTCACCTCTCTCTGTGCTGTAA
Peptide sequence:
MKEISCVCRCLLSHKKPAEVPLSPLSVL
IRESfinder result
IRESfinder score
0.75116531
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page