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mmu_circCatspere2_312
Basic information of circular RNA
PanCircBase ID:
mmu_circCatspere2_312
mm39_Chr. Position ID:
chr1|177842693|177874563|+
Gene name:
Catspere2
Transcript:
ENSMUST00000191719.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,787,2549,25181,31792
Genomic length:
31870
Exon/intron sizes in nt:
74,70,65,25,78
Flanking exon/introns:
chr1:177830609-177842693|chr1:177874563-177898094
Splice length:
312
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATTAAATTAGAGTATGAAGGAAACTCATTTGTGTCATGGAAAATACCAGAAAGCTGTAAAGTTGAAAACAATACATCACCCAAGACAACACTACACTGCAAAAGGGCTGGAATTCACACGATAGAGCCAATTGCCAGAAACCAAGAAGTGGAACGGCATCTGACTGTGGATAATTCTTATATTTGCTACTTGTGGTATTTCACAGTTGTAGACGTTTATTACAACTTAAGCCAGATTGTCACCATATGGGTGTATGATCCAGAAAGTGCCAGCACTGAAGAGCTGATAAGGACCGCAAAGAAACCTTCACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGATCCAGAAAGTGCCAGCA
59.6
GCAGTGTAGTGTTGTCTTGGG
59.13
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATCCAGAAAGTGCCAGCAC
59.19
GCAGTGTAGTGTTGTCTTGGG
59.13
156
PCR template sequence:
CGTTTATTACAACTTAAGCCAGATTGTCACCATATGGGTGTATGATCCAGAAAGTGCCAGCACTGAAGAGCTGATAAGGACCGCAAAGAAACCTTCACTGATTAAATTAGAGTATGAAGGAAACTCATTTGTGTCATGGAAAATACCAGAAAGCTGTAAAGTTGAAAACAATACATCACCCAAGACAACACTACACTGCA
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-425-5p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAACCTTCACTGATTAAATTAGAGT
siRNA sets
TAATTTAATCAGTGAAGGT,CTAATTTAATCAGTGAAGG,TTTAATCAGTGAAGGTTTC
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
0.641164477
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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