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mmu_ciCdc27_513
Basic information of circular RNA
PanCircBase ID:
mmu_ciCdc27_513
mm39_Chr. Position ID:
chr11|104397450|104397963|-
Gene name:
Cdc27
Transcript:
ENSMUST00000093923.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
18
Exon/intron offsets:
0
Genomic length:
513
Exon/intron sizes in nt:
513
Flanking exon/introns:
chr11:104396506-104397963
Splice length:
513
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTATCCTACAGAGGCTCCATAGCATTCAGAAAGCTACAGTGGCTTTTACACTTTCCAAACTGGCATTTTCTTTACAGAAAATGAGATTACTTCTAAATGTAATTACTCCTAAATCCGGTGTGCTGTGTGGCCTTGAACCTCAGCTCTGTGGTGGCAGTTGCTTACATTCTAGTTAGTCCTGGACAAATCCAAAAGTCTAGGTGTGTGATTAGTACATACTTACTAATATTTATATAAATACTAAGAGAATTGGAAGTTTTCTGAGGTAAATTCTGATTAGCTTTTGCTCCATAAAATTTAGTGAACATCTCATAAGTAAAATTTACAATCCTGGTACTGCTCTTTTAAAGAGAAGGTTATAGTCCACATTTCTTTATGCTGTCAGGAACTGTCTGCAAAGTTAAGTCACTGGTTAGGAGTTAGCAGAAATGTTAGCCTTTTTTGATGTTGTTGTTACTATATCTATTTTTATGTCTCAGAGACAAGGCCTGGGTTTTATCCCAGACTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAGTTAGCAGAAATGTTAGCCT
59.77
GCCACTGTAGCTTTCTGAATGC
60.16
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGTTAGCAGAAATGTTAGCCT
58.48
GCCACTGTAGCTTTCTGAATGC
60.16
141
PCR template sequence:
TGGTTAGGAGTTAGCAGAAATGTTAGCCTTTTTTGATGTTGTTGTTACTATATCTATTTTTATGTCTCAGAGACAAGGCCTGGGTTTTATCCCAGACTTTGTGAGTATCCTACAGAGGCTCCATAGCATTCAGAAAGCTACAGTGGCTTTTACACTTTCCAAACTGGCATTTTCTTTACAGAAAATGAGATTACTTCTAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-206-3p(1), mmu-miR-340-5p(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TATCCCAGACTTTGTGAGTATCCTAC
siRNA sets
TAGGATACTCACAAAGTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CICDC27_513_ORF_1
0.7683
-0.250368946
0.048405787
261
ORF sequence:
ATGTTAGCCTTTTTTGATGTTGTTGTTACTATATCTATTTTTATGTCTCAGAGACAAGGCCTGGGTTTTATCCCAGACTTTGTGAGTATCCTACAGAGGCTCCATAGCATTCAGAAAGCTACAGTGGCTTTTACACTTTCCAAACTGGCATTTTCTTTACAGAAAATGAGATTACTTCTAAATGTAATTACTCCTAAATCCGGTGTGCTGTGTGGCCTTGAACCTCAGCTCTGTGGTGGCAGTTGCTTACATTCTAGTTAG
Peptide sequence:
MLAFFDVVVTISIFMSQRQGLGFIPDFVSILQRLHSIQKATVAFTLSKLAFSLQKMRLLLNVITPKSGVLCGLEPQLCGGSCLHSS
IRESfinder result
IRESfinder score
0.884416595
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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