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mmu_circDmtf1_491
Basic information of circular RNA
PanCircBase ID:
mmu_circDmtf1_491
mm39_Chr. Position ID:
chr5|9177956|9180477|-
Gene name:
Dmtf1
Transcript:
ENSMUST00000071921.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
12,11,10
Exon/intron offsets:
0,1191,2411
Genomic length:
2521
Exon/intron sizes in nt:
15,22,29,110
Flanking exon/introns:
chr5:9176749-9177956|chr5:9180477-9181275
Splice length:
491
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GCTCCGGATAAAACACGGCAATGACTGGGCAACAATAGGGGCGGCCCTAGGAAGAAGTGCCTCTTCTGTCAAAGACCGCTGCCGGCTGATGAAGGATACCTGCAACACAGGGAAATGGACAGAAGAAGAAGAAAAGAGACTTGCAGAGGTAGTTCATGAATTAACAAGCACGGAGCCAGGTGACATCGTCACACAGGGTGTGTCTTGGGCAGCTGTAGCTGAAAGAGTGGGTACCCGCTCAGAAAAGCAATGCCGTTCTAAATGGCTCAACTACCTGAACTGGAAGCAGAGTGGGGGTACTGAATGGACCAAGGAAGATGAAATCAATCTCATCCTAAGGATAGCTGAGCTTGATGTGGCCGATGAAAATGACATAAACTGGGATCTTTTAGCTGAAGGATGGAGCAGTGTCCGTTCACCACAGTGGCTTCGAAGTAAATGGTGGACCATCAAAAGGCAAATTGCAAACCATAAGGATGTTTCATTTCCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGAAGGATGGAGCAGTGT
60.04
GAGGCACTTCTTCCTAGGGC
59.82
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATGGAGCAGTGTCCGTTCA
60.04
GAGGCACTTCTTCCTAGGGC
59.82
156
PCR template sequence:
GCTGAAGGATGGAGCAGTGTCCGTTCACCACAGTGGCTTCGAAGTAAATGGTGGACCATCAAAAGGCAAATTGCAAACCATAAGGATGTTTCATTTCCTGGCTCCGGATAAAACACGGCAATGACTGGGCAACAATAGGGGCGGCCCTAGGAAGAAGTGCCTCTTCTGTCAAAGACCGCTGCCGGCTGATGAAGGATACC
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-205-5p(1), mmu-miR-149-5p(1), mmu-miR-669d-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTCATTTCCTGGCTCCGGATAAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDMTF1_491_ORF_1
0.7047
0.154885545
0.417076867
414
ORF sequence:
ATGAAGGATACCTGCAACACAGGGAAATGGACAGAAGAAGAAGAAAAGAGACTTGCAGAGGTAGTTCATGAATTAACAAGCACGGAGCCAGGTGACATCGTCACACAGGGTGTGTCTTGGGCAGCTGTAGCTGAAAGAGTGGGTACCCGCTCAGAAAAGCAATGCCGTTCTAAATGGCTCAACTACCTGAACTGGAAGCAGAGTGGGGGTACTGAATGGACCAAGGAAGATGAAATCAATCTCATCCTAAGGATAGCTGAGCTTGATGTGGCCGATGAAAATGACATAAACTGGGATCTTTTAGCTGAAGGATGGAGCAGTGTCCGTTCACCACAGTGGCTTCGAAGTAAATGGTGGACCATCAAAAGGCAAATTGCAAACCATAAGGATGTTTCATTTCCTGGCTCCGGATAA
Peptide sequence:
MKDTCNTGKWTEEEEKRLAEVVHELTSTEPGDIVTQGVSWAAVAERVGTRSEKQCRSKWLNYLNWKQSGGTEWTKEDEINLILRIAELDVADENDINWDLLAEGWSSVRSPQWLRSKWWTIKRQIANHKDVSFPGSG
IRESfinder result
IRESfinder score
0.286200287
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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