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mmu_circC330002G04Rik_485
Basic information of circular RNA
PanCircBase ID:
mmu_circC330002G04Rik_485
mm39_Chr. Position ID:
chr19|23039177|23041033|-
Gene name:
C330002G04Rik
Transcript:
ENSMUST00000181623.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,1526,1736
Genomic length:
1856
Exon/intron sizes in nt:
2,66,99,120
Flanking exon/introns:
chr19:23029069-23039177|chr19:23041033-23041720
Splice length:
485
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCCGATCCTCCTGCCTAGGAATGGTGCTGCCCACAGTGGGCTTAATCCTCCCACATTAATCATCAGTCAAGACAATCTCTTGTGGACAATTCCTCAGTAGTTCAGATTTCCTCTTCCCAGCAAATAATTGCTCAGAAAGATAAACAGTTGACGGAGATTCCTCTGGCCCAAGAATTCTACCATGTTGCCCAGAAAAGGGAGGCCTGGAGACTATATCAGGGGCTCACTCACCTGCCAGGAGTTTTGAGCTACTGCAAGAGCTGTGCCAGGAATGCATAAACTAAAGGCCCCATGAGCGACATAAGCCTGTCACACACTGCCATTCTTCAGAATGTATATAGAAGAACCATATTCAGGTCAAGATGACAGAATTGCTCCAGGGGACCAAAGTTTTAGTGCCAACTGTAGGATTGAATCTAGAAGCAGGAGAAAATGAGGAGAAATGTGAACGTTTGAATAATGTCCTGAATTCACTCACCTTCAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGCCAACTGTAGGATTGA
56.45
TGGGAGGATTAAGCCCACTG
59.08
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGCCAACTGTAGGATTGA
56.45
GGGAGGATTAAGCCCACTGT
59.08
143
PCR template sequence:
CAAAGTTTTAGTGCCAACTGTAGGATTGAATCTAGAAGCAGGAGAAAATGAGGAGAAATGTGAACGTTTGAATAATGTCCTGAATTCACTCACCTTCAGACCCGATCCTCCTGCCTAGGAATGGTGCTGCCCACAGTGGGCTTAATCCTCCCACATTAATCATCAGTCAAGACAATCTCTTGTGGACAATTCCTCAGTAG
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-9-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-29b-3p(1), mmu-miR-29c-3p(1), mmu-miR-96-5p(1), mmu-miR-34b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTCACCTTCAGACCCGATCCTCCTG
siRNA sets
GATCGGGTCTGAAGGTGAG, GGAGGATCGGGTCTGAAGG, GAGGATCGGGTCTGAAGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCC330002G04RIK_485_ORF_1
0.9393
0.009625358
0.078553344
141
ORF sequence:
ATGACAGAATTGCTCCAGGGGACCAAAGTTTTAGTGCCAACTGTAGGATTGAATCTAGAAGCAGGAGAAAATGAGGAGAAATGTGAACGTTTGAATAATGTCCTGAATTCACTCACCTTCAGACCCGATCCTCCTGCCTAG
Peptide sequence:
MTELLQGTKVLVPTVGLNLEAGENEEKCERLNNVLNSLTFRPDPPA
IRESfinder result
IRESfinder score
0.664909043
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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