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mmu_circDicer1_731
Basic information of circular RNA
PanCircBase ID:
mmu_circDicer1_731
mm39_Chr. Position ID:
chr12|104671311|104673291|-
Gene name:
Dicer1
Transcript:
ENSMUST00000041987.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
18,17,16,15
Exon/intron offsets:
0,1160,1498,1800
Genomic length:
1980
Exon/intron sizes in nt:
183,154,214,180
Flanking exon/introns:
chr12:104671083-104671311|chr12:104673291-104675034
Splice length:
731
Other database IDs:
CIRCpedia: MMU_CIRCpedia_224349, circAtlas: mmu-Dicer1_0017
Human Ortholog IDs:
Mature spliced Sequence:
ATTCCAGAGTGCTTGAGGGAGAGTTACCCCAAACCCGACCAGCCTTGTTACCTGTATGTGATAGGAATGGTCTTAACTACCCCCCTCCCTGATGAACTCAACTTCAGGCGGCGGAAGCTCTACCCACCTGAGGACACCACAAGATGCTTTGGGATCCTGACAGCCAAACCCATACCTCAGATTCCTCACTTTCCTGTGTATACACGCTCTGGAGAGGTCACCATATCCATCGAGCTGAAGAAGTCTGGTTTCACATTGTCTCAACAAATGCTCGAGCTGATTACAAGATTGCACCAGTACATATTCTCACATATTCTCCGGCTTGAGAAGCCTGCCCTGGAGTTTAAACCTACAGGCGCGGAGTCAGCCTACTGTGTTCTACCTCTTAATGTTGTTAATGACTCCGGCACTTTGGACATTGACTTTAAATTCATGGAGGATATTGAGAAGTCGGAAGCTCGGATAGGCATTCCTAGCACCAAGTATTCAAAGGAAACACCGTTTGTCTTTAAGTTAGAAGATTACCAAGATGCAGTGATCATTCCAAGATACCGCAATTTTGATCAGCCTCATCGATTTTATGTAGCTGATGTATATACGGATCTTACCCCACTCAGTAAATTTCCTTCCCCTGAATATGAAACTTTTGCAGAATATTATAAAACAAAGTATAACCTTGACCTGACCAATCTCAACCAGCCACTGCTGGATGTTGACCACACATCTTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAATCTCAACCAGCCACTGC
59.48
TGAGTTCATCAGGGAGGGGG
60.62
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACCAATCTCAACCAGCCA
59.23
TGAGTTCATCAGGGAGGGGG
60.62
149
PCR template sequence:
CTGAATATGAAACTTTTGCAGAATATTATAAAACAAAGTATAACCTTGACCTGACCAATCTCAACCAGCCACTGCTGGATGTTGACCACACATCTTCCAGATTCCAGAGTGCTTGAGGGAGAGTTACCCCAAACCCGACCAGCCTTGTTACCTGTATGTGATAGGAATGGTCTTAACTACCCCCCTCCCTGATGAACTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-466a-5p(2), mmu-miR-466p-5p(2), mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-106b-5p(1), mmu-miR-149-5p(1), mmu-miR-98-5p(1), mmu-miR-1187(1)
siRNAs for circular RNA silencing
Junction sequence
ACACATCTTCCAGATTCCAGAGTGCT
siRNA sets
CTGGAATCTGGAAGATGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDICER1_731_ORF_1
0.8652
0.165739582
0.872542067
681
ORF sequence:
ATGGTCTTAACTACCCCCCTCCCTGATGAACTCAACTTCAGGCGGCGGAAGCTCTACCCACCTGAGGACACCACAAGATGCTTTGGGATCCTGACAGCCAAACCCATACCTCAGATTCCTCACTTTCCTGTGTATACACGCTCTGGAGAGGTCACCATATCCATCGAGCTGAAGAAGTCTGGTTTCACATTGTCTCAACAAATGCTCGAGCTGATTACAAGATTGCACCAGTACATATTCTCACATATTCTCCGGCTTGAGAAGCCTGCCCTGGAGTTTAAACCTACAGGCGCGGAGTCAGCCTACTGTGTTCTACCTCTTAATGTTGTTAATGACTCCGGCACTTTGGACATTGACTTTAAATTCATGGAGGATATTGAGAAGTCGGAAGCTCGGATAGGCATTCCTAGCACCAAGTATTCAAAGGAAACACCGTTTGTCTTTAAGTTAGAAGATTACCAAGATGCAGTGATCATTCCAAGATACCGCAATTTTGATCAGCCTCATCGATTTTATGTAGCTGATGTATATACGGATCTTACCCCACTCAGTAAATTTCCTTCCCCTGAATATGAAACTTTTGCAGAATATTATAAAACAAAGTATAACCTTGACCTGACCAATCTCAACCAGCCACTGCTGGATGTTGACCACACATCTTCCAGATTCCAGAGTGCTTGA
Peptide sequence:
MVLTTPLPDELNFRRRKLYPPEDTTRCFGILTAKPIPQIPHFPVYTRSGEVTISIELKKSGFTLSQQMLELITRLHQYIFSHILRLEKPALEFKPTGAESAYCVLPLNVVNDSGTLDIDFKFMEDIEKSEARIGIPSTKYSKETPFVFKLEDYQDAVIIPRYRNFDQPHRFYVADVYTDLTPLSKFPSPEYETFAEYYKTKYNLDLTNLNQPLLDVDHTSSRFQSA
IRESfinder result
IRESfinder score
0.716230098
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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