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mmu_circA830018L16Rik_338
Basic information of circular RNA
PanCircBase ID:
mmu_circA830018L16Rik_338
mm39_Chr. Position ID:
chr1|11818188|12003815|+
Gene name:
A830018L16Rik
Transcript:
ENSMUST00000048613.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
8,9,10,11
Exon/intron offsets:
0,50516,81850,185579
Genomic length:
185627
Exon/intron sizes in nt:
127,86,77,48
Flanking exon/introns:
chr1:11666541-11818188|chr1:12003815-12021186
Splice length:
338
Other database IDs:
CIRCpedia: MMU_CIRCpedia_4262, circAtlas: mmu-A830018L16Rik_0013
Human Ortholog IDs:
Mature spliced Sequence:
AAAATCTGGATGACTTAAGGATGGAGGGTGTAACCACTCTGGTACTTTCGGGGAGCAAATTTAACCAAGGTCGTCCTACTCACCCTGCCGAGCCACAGGCCAAAGTCACACTGAACATCTGTTCAAGGCTTCAAGGAGACAACTTGATGGAAAGAACAGAAGACACACTACAAATACTTCATACTCCAGATGAGATAATCCCAGACTCATTAGATTCTTTACCTGGGACAGAAGAAACTCTTATGGAGGAAGGTGAAGATTTTGAGAAAACATCAAACTTAACAGAACCAGGAGAAGCCTCTAGTGGAGCACACTCTTTGAAATCCTACATGGAAGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAACCAGGAGAAGCCTC
59.02
AGGGTGAGTAGGACGACCTT
59.59
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAACCAGGAGAAGCCTC
59.02
GGTGAGTAGGACGACCTTGG
59.47
141
PCR template sequence:
TCTTATGGAGGAAGGTGAAGATTTTGAGAAAACATCAAACTTAACAGAACCAGGAGAAGCCTCTAGTGGAGCACACTCTTTGAAATCCTACATGGAAGAAAAAATCTGGATGACTTAAGGATGGAGGGTGTAACCACTCTGGTACTTTCGGGGAGCAAATTTAACCAAGGTCGTCCTACTCACCCTGCCGAGCCACAGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-382-5p(1), mmu-miR-207(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTACATGGAAGAAAAAATCTGGATGA
siRNA sets
ATCCAGATTTTTTCTTCCA, CATCCAGATTTTTTCTTCC, GATTTTTTCTTCCATGTAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCA830018L16RIK_338_ORF_1
0.8543
0.061766221
0.270317534
336
ORF sequence:
ATGGAGGGTGTAACCACTCTGGTACTTTCGGGGAGCAAATTTAACCAAGGTCGTCCTACTCACCCTGCCGAGCCACAGGCCAAAGTCACACTGAACATCTGTTCAAGGCTTCAAGGAGACAACTTGATGGAAAGAACAGAAGACACACTACAAATACTTCATACTCCAGATGAGATAATCCCAGACTCATTAGATTCTTTACCTGGGACAGAAGAAACTCTTATGGAGGAAGGTGAAGATTTTGAGAAAACATCAAACTTAACAGAACCAGGAGAAGCCTCTAGTGGAGCACACTCTTTGAAATCCTACATGGAAGAAAAAATCTGGATGACTTAA
Peptide sequence:
MEGVTTLVLSGSKFNQGRPTHPAEPQAKVTLNICSRLQGDNLMERTEDTLQILHTPDEIIPDSLDSLPGTEETLMEEGEDFEKTSNLTEPGEASSGAHSLKSYMEEKIWMT
IRESfinder result
IRESfinder score
0.714825153
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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