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mmu_circ1700025G04Rik_249
Basic information of circular RNA
PanCircBase ID:
mmu_circ1700025G04Rik_249
mm39_Chr. Position ID:
chr1|151769072|151796874|-
Gene name:
1700025G04Rik
Transcript:
ENSMUST00000187603.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,5,4
Exon/intron offsets:
0,22160,27725
Genomic length:
27802
Exon/intron sizes in nt:
111,61,77
Flanking exon/introns:
chr1:151730095-151769072|chr1:151796874-151856176
Splice length:
249
Other database IDs:
CIRCpedia: MMU_CIRCpedia_10276, circAtlas: mmu-1700025G04Rik_0005
circBase: hsa_circ_0111456, circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAAAAAAGTGCCAGCTCGAACACAAGGCTTAAAACTAATAAAGAAATCCCTGGATTAGTTCATCAACCCAGAGCAAACATGCACATCTCTGAAAGCCAACAAGAATTCTTCAGAATGCTGGATGAAAAAATCGAAAAGGGTCGGGATTACTGTTCTGAAGAAGAGGATATCACATAGCATCGGTTCTCAGTCGGACCAGGAGCTACTACTGTGTAAATAGGTTGCACCCCAGTTGAAACCTTTGCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATCGGTTCTCAGTCGGACC
60.18
GCATGTTTGCTCTGGGTTGA
59.04
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGTCGGACCAGGAGCTA
60.39
GCATGTTTGCTCTGGGTTGA
59.04
146
PCR template sequence:
CTGTTCTGAAGAAGAGGATATCACATAGCATCGGTTCTCAGTCGGACCAGGAGCTACTACTGTGTAAATAGGTTGCACCCCAGTTGAAACCTTTGCAAAGGAAAAAAGTGCCAGCTCGAACACAAGGCTTAAAACTAATAAAGAAATCCCTGGATTAGTTCATCAACCCAGAGCAAACATGCACATCTCTGAAAGCCAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-541-5p(1), mmu-miR-342-5p(1), mmu-miR-335-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACCTTTGCAAAGGAAAAAAGTGCCA
siRNA sets
TTTTTTCCTTTGCAAAGGT, TGGCACTTTTTTCCTTTGC, TTTTTCCTTTGCAAAGGTT
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
0.591845725
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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