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mmu_ciDnajc13_869
Basic information of circular RNA
PanCircBase ID:
mmu_ciDnajc13_869
mm39_Chr. Position ID:
chr9|104052987|104053856|-
Gene name:
Dnajc13
Transcript:
ENSMUST00000035170.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
42
Exon/intron offsets:
0
Genomic length:
869
Exon/intron sizes in nt:
869
Flanking exon/introns:
chr9:104052962-104053856
Splice length:
869
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTTAATGTTTTATATTTTCTTAGGTGACTTATTCTGATTGAATGAGTCTTGATGAAGCAGTGTGCTATTCACCAATGAAATGTTTAGTCAACAGCTCTAGCCACCTCTTAGCTGGGCATTTCAAGGATAGGCTAGTGTTGTATGAAGTCGTCCTCTAGGGGACGAGGGATGACTCAGCAGCTGTGAGCACCTACTGCTCCTCAGAGGACCAGATCTGTATTCCTAACCCTATAAGCTGCTCATAGTTCATGGGGGGGGGGGGGGGGTGTGTCTCTGATACATCTGCCTCAAAGTCACCTAGACTCAGCTGTACAAACACACACAGACAGACACACACATGTATTTAAGTCTCTAAAATACTACATTAGGATTTTCTCATTGTCACTACTTCCATAAAGTTAACATCTGTTTACAGTAGTGATGCACTGGGAGACCTGGGCCCTTTGTCAATTTATTTCTTGTAAACCCCCAGTCTGAGTGTACTGAGTGTATGCACGAGCACGCACACACACACACACACACACACACACACACACACACACTATAGTGTGACTGAGCTGGGTGGCCACTGGAGGAGTGAGAACAGCATGTCACAGTCGGCTTTCTCTGCCAGCTCTAGTTCTTGCCTCATCTAGTGTTCTTCTGAGATTGAGGATGAGGCCTGGTAATTAGCAGCAGTAATGCGCTCTGTCACTGTGCCTGTCCCAGCCATGGACTAGCACATGTGTCCTGCCATGTTTGCTCTCTGAACGTCGGTGCCCTTCTTAACATATTCAGTGCATTATTAGACAAAGCAGGGTAGATTTAAAAACTGGACATTAAGTTCTTACATCTAACAGTCTTGTTTTTCTTTCTTTGGTTTTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGCATTATTAGACAAAGCAGGGT
59.6
GCACACTGCTTCATCAAGACT
58.85
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGCATTATTAGACAAAGCAGGGT
59.6
GCACACTGCTTCATCAAGACTC
59.84
158
PCR template sequence:
TAACATATTCAGTGCATTATTAGACAAAGCAGGGTAGATTTAAAAACTGGACATTAAGTTCTTACATCTAACAGTCTTGTTTTTCTTTCTTTGGTTTTTTGTATGTTAATGTTTTATATTTTCTTAGGTGACTTATTCTGATTGAATGAGTCTTGATGAAGCAGTGTGCTATTCACCAATGAAATGTTTAGTCAACAGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-1187(3), mmu-miR-574-5p(2), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-31-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-216a-5p(1), mmu-miR-709(1), mmu-miR-203-3p(1), mmu-miR-362-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-673-5p(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTTTGGTTTTTTGTATGTTAATGTT
siRNA sets
CATTAACATACAAAAAACC, ATTAACATACAAAAAACCA, ACATACAAAAAACCAAAGA
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
0.843700506
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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