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mmu_ciRbm25_380
Basic information of circular RNA
PanCircBase ID:
mmu_ciRbm25_380
mm39_Chr. Position ID:
chr12|83721437|83721817|+
Gene name:
Rbm25
Transcript:
ENSMUST00000048155.16
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
15
Exon/intron offsets:
0
Genomic length:
380
Exon/intron sizes in nt:
380
Flanking exon/introns:
chr12:83721437-83721817
Splice length:
380
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTCAGCATTGCCCTTTCTTTTCTTTTCCTCCCATGTCCCAATAAGTTCCATTGTAAGGACAAAAGAATACTTATACACACATAGTTCCATGGTAGATAGATAGCAAAGTATTCAACAATGCCTTTGTAGCTCACGATTGTTTTCATAGTTCTACTAGTGCTCCTATATCTCCAGCTGCCTCCAGTTCTGAGAAGAAGTGAAAAGTTAAATTTTCTAGCACTTGTGAGTAGAGAGTTACTACTTTTTTTTTTTTAACAGTTGGGATCTTTCTCAGAGAATTGTGGAAATATGTTTGCACCTTTTGAGGGATGGTGGGTTGTCAGATTTAGCATTTGAAAATGATGTTTTCATACTAAGATAGTGTTTTTAACTATAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCACCTTTTGAGGGATGGT
59.52
CAATGGAACTTATTGGGACATGGG
59.9
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTTGCACCTTTTGAGGGA
57.85
TGGAACTTATTGGGACATGGGA
59.08
141
PCR template sequence:
AATTGTGGAAATATGTTTGCACCTTTTGAGGGATGGTGGGTTGTCAGATTTAGCATTTGAAAATGATGTTTTCATACTAAGATAGTGTTTTTAACTATAGGTATGTCAGCATTGCCCTTTCTTTTCTTTTCCTCCCATGTCCCAATAAGTTCCATTGTAAGGACAAAAGAATACTTATACACACATAGTTCCATGGTAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-let-7a-5p(1), mmu-miR-141-3p(1), mmu-miR-19a-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTTAACTATAGGTATGTCAGCATT
siRNA sets
AATGCTGACATACCTATAG,ATGCTGACATACCTATAGT
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
0.903335367
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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