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mmu_circIno80d_244
Basic information of circular RNA
PanCircBase ID:
mmu_circIno80d_244
mm39_Chr. Position ID:
chr1|63104862|63107452|-
Gene name:
Ino80d
Transcript:
ENSMUST00000133236.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,5
Exon/intron offsets:
0,2480
Genomic length:
2590
Exon/intron sizes in nt:
1,34,110
Flanking exon/introns:
chr1:63101412-63104862|chr1:63107452-63113480
Splice length:
244
Other database IDs:
CIRCpedia: MMU_CIRCpedia_221330, circAtlas: mmu-Ino80d_0008
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CCTTCGCCAGACCAAGTTGAAGGAGGTGGAGCCAGCAGCATGTAGTGGAACAGTGAAGGGCGAACAGTGCACAAAGCAGGCCCTTCCCTTCACCAGACACTGTTTCCAGCACATCCTCCTGAACCGCTCTCAGCAGCTCTTCTCCAGCTGCACTGCCAAGTTTGCAGACGGACAGCAGTGCTCTGTGCCAGTGTTTGACATTACACACCAGACGCCCCTGTGTGAAGAACATGCCAAAAAGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGCTCTGTGCCAGTGTTTG
59.97
GTGTCTGGTGAAGGGAAGGG
59.96
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGCTCTGTGCCAGTGTTT
60.11
GTGTCTGGTGAAGGGAAGGG
59.96
168
PCR template sequence:
CAGCTGCACTGCCAAGTTTGCAGACGGACAGCAGTGCTCTGTGCCAGTGTTTGACATTACACACCAGACGCCCCTGTGTGAAGAACATGCCAAAAAGATGCCTTCGCCAGACCAAGTTGAAGGAGGTGGAGCCAGCAGCATGTAGTGGAACAGTGAAGGGCGAACAGTGCACAAAGCAGGCCCTTCCCTTCACCAGACAC
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-141-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-148a-3p(1), mmu-miR-149-5p(1), mmu-miR-34b-5p(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCCAAAAAGATGCCTTCGCCAGACC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCINO80D_244_ORF_1
0.8475
0.271838819
0.330648002
258
ORF sequence:
ATGCCAAAAAGATGCCTTCGCCAGACCAAGTTGAAGGAGGTGGAGCCAGCAGCATGTAGTGGAACAGTGAAGGGCGAACAGTGCACAAAGCAGGCCCTTCCCTTCACCAGACACTGTTTCCAGCACATCCTCCTGAACCGCTCTCAGCAGCTCTTCTCCAGCTGCACTGCCAAGTTTGCAGACGGACAGCAGTGCTCTGTGCCAGTGTTTGACATTACACACCAGACGCCCCTGTGTGAAGAACATGCCAAAAAGATG
Peptide sequence:
MPKRCLRQTKLKEVEPAACSGTVKGEQCTKQALPFTRHCFQHILLNRSQQLFSSCTAKFADGQQCSVPVFDITHQTPLCEEHAKKM
IRESfinder result
IRESfinder score
0.465385299
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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