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mmu_circDna2_800
Basic information of circular RNA
PanCircBase ID:
mmu_circDna2_800
mm39_Chr. Position ID:
chr10|62786513|62793949|+
Gene name:
Dna2
Transcript:
ENSMUST00000131422.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,3449,4579,6195,7318
Genomic length:
7436
Exon/intron sizes in nt:
18,41,46,13,22,20,118
Flanking exon/introns:
chr10:62785144-62786513|chr10:62793949-62794674
Splice length:
800
Other database IDs:
circAtlas: mmu-Dna2_0009
Human Ortholog IDs:
Mature spliced Sequence:
GAGCTCAGTACCAGTTGAGCCAGGGGACATCGTTCACTTAGAGGGAGACTGCACATCTGAGCCGTGGATAATAGACGATGACTTTGGATATTTTATTCTGTACCCGGACATGATGATCTCCGGCACAAGCGTCGCTAGCAGCATTCGGTGTCTGAGAAGAGCTGTCCTGAGCGAGACCTTCAGGGGCTCTGATCCAGCCACTCGCCAGATGCTGATCGGTACAATTCTCCACGAAGTCTTTCAGAAAGCGATAAGTGAGAGCTTTGCTCCAGAAAGGCTACAAGAGCTTGCTCTTCAGACCCTCCGAGAAGTGAGGCATTTGAAGGAAATGTATCGCTTGAATCTGAGCCAAGATGAAATACTCTGTGAAGTTGAGGAGTATCTCCCTTCTTTCTCTAAGTGGGCGGAGGACTTCATGCGTAAGGGCCCTTCGTCTGAATTCCCTCAAATGCAGCTCTCTCTGCCAAGCGATGGCAGTAACAGAAGTTCACCTTGTAACATTGAAGTAGTCAAGTCACTGGATATCGAAGAAAGCATCTGGTCCCCTAGGTTTGGACTGAAGGGCAAAATAGACGTCACAGTCGGGGTCAAAATACATCGAGATTGTAAAATGAAATACAAGGTAATGCCACTGGAGCTGAAGACCGGCAAAGAGTCCAACTCCATCGAGCACCGGAGTCAGGTGGTCCTGTACACGCTGCTAAGCCAGGAGAGGCGAGAGGACCCCGAGGCTGGCTGGCTTCTCTACCTCAAGACCGGGCAGATGTACCCTGTGCCCGCCAACCATCTGGACAAAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGGCTGGCTTCTCTACC
60.15
TATCCACGGCTCAGATGTGC
59.9
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTGGCTGGCTTCTCTAC
60.15
TATCCACGGCTCAGATGTGC
59.9
141
PCR template sequence:
CTAAGCCAGGAGAGGCGAGAGGACCCCGAGGCTGGCTGGCTTCTCTACCTCAAGACCGGGCAGATGTACCCTGTGCCCGCCAACCATCTGGACAAAAGAGGAGCTCAGTACCAGTTGAGCCAGGGGACATCGTTCACTTAGAGGGAGACTGCACATCTGAGCCGTGGATAATAGACGATGACTTTGGATATTTTATTCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-24-3p(2), mmu-let-7e-5p(1), mmu-miR-503-5p(1), mmu-miR-666-5p(1), mmu-miR-27a-5p(1), mmu-miR-452-3p(1), mmu-miR-490-3p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGGACAAAAGAGGAGCTCAGTACCA
siRNA sets
TGAGCTCCTCTTTTGTCCA, TACTGAGCTCCTCTTTTGT, CTGAGCTCCTCTTTTGTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNA2_800_ORF_1
1.1154
0.264431475
0.959193094
732
ORF sequence:
ATGATGATCTCCGGCACAAGCGTCGCTAGCAGCATTCGGTGTCTGAGAAGAGCTGTCCTGAGCGAGACCTTCAGGGGCTCTGATCCAGCCACTCGCCAGATGCTGATCGGTACAATTCTCCACGAAGTCTTTCAGAAAGCGATAAGTGAGAGCTTTGCTCCAGAAAGGCTACAAGAGCTTGCTCTTCAGACCCTCCGAGAAGTGAGGCATTTGAAGGAAATGTATCGCTTGAATCTGAGCCAAGATGAAATACTCTGTGAAGTTGAGGAGTATCTCCCTTCTTTCTCTAAGTGGGCGGAGGACTTCATGCGTAAGGGCCCTTCGTCTGAATTCCCTCAAATGCAGCTCTCTCTGCCAAGCGATGGCAGTAACAGAAGTTCACCTTGTAACATTGAAGTAGTCAAGTCACTGGATATCGAAGAAAGCATCTGGTCCCCTAGGTTTGGACTGAAGGGCAAAATAGACGTCACAGTCGGGGTCAAAATACATCGAGATTGTAAAATGAAATACAAGGTAATGCCACTGGAGCTGAAGACCGGCAAAGAGTCCAACTCCATCGAGCACCGGAGTCAGGTGGTCCTGTACACGCTGCTAAGCCAGGAGAGGCGAGAGGACCCCGAGGCTGGCTGGCTTCTCTACCTCAAGACCGGGCAGATGTACCCTGTGCCCGCCAACCATCTGGACAAAAGAGGAGCTCAGTACCAGTTGAGCCAGGGGACATCGTTCACTTAG
Peptide sequence:
MMISGTSVASSIRCLRRAVLSETFRGSDPATRQMLIGTILHEVFQKAISESFAPERLQELALQTLREVRHLKEMYRLNLSQDEILCEVEEYLPSFSKWAEDFMRKGPSSEFPQMQLSLPSDGSNRSSPCNIEVVKSLDIEESIWSPRFGLKGKIDVTVGVKIHRDCKMKYKVMPLELKTGKESNSIEHRSQVVLYTLLSQERREDPEAGWLLYLKTGQMYPVPANHLDKRGAQYQLSQGTSFT
IRESfinder result
IRESfinder score
0.439515525
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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