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mmu_circDcdc5_372
Basic information of circular RNA
PanCircBase ID:
mmu_circDcdc5_372
mm39_Chr. Position ID:
chr2|106166307|106175825|+
Gene name:
Dcdc5
Transcript:
ENSMUST00000122388.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
19,20,21
Exon/intron offsets:
0,5567,9418
Genomic length:
9518
Exon/intron sizes in nt:
1,79,93,100
Flanking exon/introns:
chr2:106159252-106166307|chr2:106175825-106180009
Splice length:
372
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAATGTGACTGGCCAGTAGAAGGTCTATTGGACACAAACAGCTCTCCCATGAAGAGGATGGCAAGTAAGAGACCAGATCTGCTTGTCCCTATGCGACTCCGAGTTCTAAGGAATGGAGAGAAGAAAAACATCAGACCCCTGGTGATTGGCCCGGACATCTCACCTGGATGGAAATCACAAAATGTTAATGCTGAAAGGAAAGAGAAAAGCCATGCCATGAACCATTCTGAAACAGAAAGAAACCAGATCGAATTTCACCACCTTTTGGAGAGGTGCACCGACATTTTGAACTTACCTTCTGCTGCTCGGAGACTTTTCAGTGAAAAGGGGAAGGAACTTTTTTCCCTGAAAGACCTACAGCGAGATGAACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCTGCTGCTCGGAGACTT
59.75
GTCGCATAGGGACAAGCAGA
59.82
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCTGCTGCTCGGAGACTT
59.75
GAGTCGCATAGGGACAAGCA
59.82
176
PCR template sequence:
GTGCACCGACATTTTGAACTTACCTTCTGCTGCTCGGAGACTTTTCAGTGAAAAGGGGAAGGAACTTTTTTCCCTGAAAGACCTACAGCGAGATGAACTGGAATGTGACTGGCCAGTAGAAGGTCTATTGGACACAAACAGCTCTCCCATGAAGAGGATGGCAAGTAAGAGACCAGATCTGCTTGTCCCTATGCGACTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-15b-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCGAGATGAACTGGAATGTGACTGGC
siRNA sets
ACATTCCAGTTCATCTCGC, CACATTCCAGTTCATCTCG, TCACATTCCAGTTCATCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDCDC5_372_ORF_1
0.8489
0.160467368
0.88045818
696
ORF sequence:
ATGAAGAGGATGGCAAGTAAGAGACCAGATCTGCTTGTCCCTATGCGACTCCGAGTTCTAAGGAATGGAGAGAAGAAAAACATCAGACCCCTGGTGATTGGCCCGGACATCTCACCTGGATGGAAATCACAAAATGTTAATGCTGAAAGGAAAGAGAAAAGCCATGCCATGAACCATTCTGAAACAGAAAGAAACCAGATCGAATTTCACCACCTTTTGGAGAGGTGCACCGACATTTTGAACTTACCTTCTGCTGCTCGGAGACTTTTCAGTGAAAAGGGGAAGGAACTTTTTTCCCTGAAAGACCTACAGCGAGATGAACTGGAATGTGACTGGCCAGTAGAAGGTCTATTGGACACAAACAGCTCTCCCATGAAGAGGATGGCAAGTAAGAGACCAGATCTGCTTGTCCCTATGCGACTCCGAGTTCTAAGGAATGGAGAGAAGAAAAACATCAGACCCCTGGTGATTGGCCCGGACATCTCACCTGGATGGAAATCACAAAATGTTAATGCTGAAAGGAAAGAGAAAAGCCATGCCATGAACCATTCTGAAACAGAAAGAAACCAGATCGAATTTCACCACCTTTTGGAGAGGTGCACCGACATTTTGAACTTACCTTCTGCTGCTCGGAGACTTTTCAGTGAAAAGGGGAAGGAACTTTTTTCCCTGAAAGACCTACAGCGAGATGAACTG
Peptide sequence:
MKRMASKRPDLLVPMRLRVLRNGEKKNIRPLVIGPDISPGWKSQNVNAERKEKSHAMNHSETERNQIEFHHLLERCTDILNLPSAARRLFSEKGKELFSLKDLQRDELECDWPVEGLLDTNSSPMKRMASKRPDLLVPMRLRVLRNGEKKNIRPLVIGPDISPGWKSQNVNAERKEKSHAMNHSETERNQIEFHHLLERCTDILNLPSAARRLFSEKGKELFSLKDLQRDEL
IRESfinder result
IRESfinder score
0.478256083
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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