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Database for pancreatic islet circular RNAs
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mmu_circAdat1_850
Basic information of circular RNA
PanCircBase ID:
mmu_circAdat1_850
mm39_Chr. Position ID:
chr8|112704670|112709397|-
Gene name:
Adat1
Transcript:
ENSMUST00000034427.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,7,6
Exon/intron offsets:
0,1260,4123
Genomic length:
4727
Exon/intron sizes in nt:
10,01,46,604
Flanking exon/introns:
chr8:112698823-112704670|chr8:112709397-112713753
Splice length:
850
Other database IDs:
circAtlas: mmu-Adat1_0009
Human Ortholog IDs:
Mature spliced Sequence:
GTGGGGATGCCTCCATCATCCCGATGCTCGAGTTTGAAGAACAGCCTTGCTGTCCTGTCATCAGAAGTTGGGCCAACAACTCACCTGTACAAGAGACTGAGAATCTAGAGGATTCTAAAGATAAAAGGAACTGTGAAGATCCCGCCAGTCCTGTAGCCAAGAAGATGAGGCTGGGAACACCTGCCAGGTCACTCTCCAATTGTGTAGCTCACCATGGGACCCAGGAAAGTGGTCCAGTCAAACCAGATGTCAGCAGCTCTGATCTCACCAAGGAGGAACCAGATGCTGCCAATGGAATAGCTTCAGGTAGCTTCAGAGTGGTGGATGTGTACAGGACGGGAGCCAAGTGTGTTCCTGGAGAAACTGGAGACTTGAGAGAGCCAGGTGCTGCCTACCACCAGGTGGGGCTACTTCGTGTAAAACCTGGCAGGGGAGACAGGACATGCTCCATGTCCTGCAGTGACAAGATGGCAAGGTGGAATGTCCTCGGATGCCAGGGCGCACTGCTGATGCACTTCCTGGAGAAGCCTATCTACCTGTCAGCTGTGGTCATCGGGAAGTGCCCGTACAGCCAGGAAGCCATGAGGAGAGCATTGACTGGCAGGTGTGAGGAAACCTTGGTTTTACCCAGAGGCTTTGGAGTTCAAGAACTGGAAATACAGCAGTCGGGTTTACTGTTTGAACAGAGCCGCTGTGCGGTGCACAGGAAAAGAGGTGACAGTCCAGGCCGACTCGTCCCCTGTGGGGCAGCTATCAGCTGGAGCGCTGTCCCTCAGCAGCCCTTGGATGTTACAGCCAATGGTTTTCCACAGGGAACAACAAAGAAAGAGATTGGAAGCCCTAGGGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCTTGGATGTTACAGCC
60.03
TACAGGTGAGTTGTTGGCCC
59.89
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAGCAGCCCTTGGATGTT
60.32
GATGACAGGACAGCAAGGCT
60.04
141
PCR template sequence:
CTATCAGCTGGAGCGCTGTCCCTCAGCAGCCCTTGGATGTTACAGCCAATGGTTTTCCACAGGGAACAACAAAGAAAGAGATTGGAAGCCCTAGGGCCAGGTGGGGATGCCTCCATCATCCCGATGCTCGAGTTTGAAGAACAGCCTTGCTGTCCTGTCATCAGAAGTTGGGCCAACAACTCACCTGTACAAGAGACTGA
Note: Users can design additional primers for provided template sequence using
Primer3
or
NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs
(#binding sites)
mmu-miR-135a-5p(1), mmu-miR-149-5p(1), mmu-miR-383-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-452-3p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
GCCCTAGGGCCAGGTGGGGATGCCTC
siRNA sets