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mmu_circSlc30a9_503
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc30a9_503
mm39_Chr. Position ID:
chr5|67473020|67487294|+
Gene name:
Slc30a9
Transcript:
ENSMUST00000113676.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,11175,12020,12764,14215
Genomic length:
14274
Exon/intron sizes in nt:
168,100,93,83,59
Flanking exon/introns:
chr5:67464540-67473020|chr5:67487294-67490396
Splice length:
503
Other database IDs:
circAtlas: mmu-Slc30a9_0019
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GATGGAAGAATGTAATGACATTTGAAAGCTTTACATATGTGGTTCCCGACATTCACCCACATTTATCTATTATAAATCAAGTCAAGTTGTACTCTACGAATGTCCAGAAAGGAGGGCAGGGCTCACAGACTCCAAAAGCTGACAAAGTCCCATCACTTACACAAACAGTCAAAGCAGTCCTTAAGAAAAGGGATTATGGATCAAAATACACTAAGAATAATTTCATCACTGGAGTGAGAGCAATAAACGAGTTCTGCCTTAAGTCCAGTGATTTAGAACAACTTCGAAAAATCAGGCGGCGAAGTCCCCACGATGACACCGAGTCCTTTACTGTGTTCTTGAGGTCAGATGTGGAAGCAAAAGCTTTGGAAGTTTGGGGAAGCCTTGAAGCTCTTGCCAGAGAGAAAAAATTGCGTAAAGAAGCAGAAATAGAATACAGAGAACGGCTATTTAGAAACCAAAGAATATTAAGAGAATATGGTGATTTCTTGGGAAACACAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGAAATAGAATACAGAGAACGGC
60.05
TGTGGGTGAATGTCGGGAAC
60.25
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGAAATAGAATACAGAGAACGGC
60.05
ATGTGGGTGAATGTCGGGAA
59.3
143
PCR template sequence:
GAAAAAATTGCGTAAAGAAGCAGAAATAGAATACAGAGAACGGCTATTTAGAAACCAAAGAATATTAAGAGAATATGGTGATTTCTTGGGAAACACAAAGGATGGAAGAATGTAATGACATTTGAAAGCTTTACATATGTGGTTCCCGACATTCACCCACATTTATCTATTATAAATCAAGTCAAGTTGTACTCTACGAA
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-382-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-5101(1), mmu-miR-539-5p(1), mmu-miR-1904(1), mmu-miR-376a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGGAAACACAAAGGATGGAAGAATGT
siRNA sets
TCCATCCTTTGTGTTTCCC, ACATTCTTCCATCCTTTGT, TTCCATCCTTTGTGTTTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC30A9_503_ORF_1
0.6205
-0.019807864
0.364311122
504
ORF sequence:
ATGACATTTGAAAGCTTTACATATGTGGTTCCCGACATTCACCCACATTTATCTATTATAAATCAAGTCAAGTTGTACTCTACGAATGTCCAGAAAGGAGGGCAGGGCTCACAGACTCCAAAAGCTGACAAAGTCCCATCACTTACACAAACAGTCAAAGCAGTCCTTAAGAAAAGGGATTATGGATCAAAATACACTAAGAATAATTTCATCACTGGAGTGAGAGCAATAAACGAGTTCTGCCTTAAGTCCAGTGATTTAGAACAACTTCGAAAAATCAGGCGGCGAAGTCCCCACGATGACACCGAGTCCTTTACTGTGTTCTTGAGGTCAGATGTGGAAGCAAAAGCTTTGGAAGTTTGGGGAAGCCTTGAAGCTCTTGCCAGAGAGAAAAAATTGCGTAAAGAAGCAGAAATAGAATACAGAGAACGGCTATTTAGAAACCAAAGAATATTAAGAGAATATGGTGATTTCTTGGGAAACACAAAGGATGGAAGAATGTAA
Peptide sequence:
MTFESFTYVVPDIHPHLSIINQVKLYSTNVQKGGQGSQTPKADKVPSLTQTVKAVLKKRDYGSKYTKNNFITGVRAINEFCLKSSDLEQLRKIRRRSPHDDTESFTVFLRSDVEAKALEVWGSLEALAREKKLRKEAEIEYRERLFRNQRILREYGDFLGNTKDGRM
IRESfinder result
IRESfinder score
0.598298544
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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