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mmu_circDlgap1_271
Basic information of circular RNA
PanCircBase ID:
mmu_circDlgap1_271
mm39_Chr. Position ID:
chr17|70385256|70513340|+
Gene name:
Dlgap1
Transcript:
ENSMUST00000060072.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,127975
Genomic length:
128084
Exon/intron sizes in nt:
1,62,109
Flanking exon/introns:
chr17:70276665-70385256|chr17:70513340-70615041
Splice length:
271
Other database IDs:
CIRCpedia: MMU_CIRCpedia_27381, circAtlas: mmu-Dlgap1_0023
Human Ortholog IDs:
Mature spliced Sequence:
AAAACTGTGGGTGATACTATCGGATCACTTCTAGTGACTGCTACTCAAACCTTTCCCTGGGACACTTTCTTCAAAAGACCAGCACACATCCAACTTGCCCAGATATAATCCCAGATTAATGAAGGTCTTCTAGAAGGGACTACATTAGTCTCACCCGGACTGCGATTGCTGTTGAGAATGCTAAATGGTTTGGCTACCATGGAAGTCAGAACAGAAGCTTCTCAGAAAAGAAAATTCGAATGACCATATGGCTCAGATGTACCACTCCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCTACCATGGAAGTCAGA
58.05
GCAAGTTGGATGTGTGCTGG
60.04
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCTACCATGGAAGTCAGA
58.05
GGCAAGTTGGATGTGTGCTG
60.04
180
PCR template sequence:
TTGAGAATGCTAAATGGTTTGGCTACCATGGAAGTCAGAACAGAAGCTTCTCAGAAAAGAAAATTCGAATGACCATATGGCTCAGATGTACCACTCCTAGAAAACTGTGGGTGATACTATCGGATCACTTCTAGTGACTGCTACTCAAACCTTTCCCTGGGACACTTTCTTCAAAAGACCAGCACACATCCAACTTGCCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-205-5p(1), mmu-miR-224-5p(1), mmu-miR-1187(1)
siRNAs for circular RNA silencing
Junction sequence
GTACCACTCCTAGAAAACTGTGGGTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDLGAP1_271_ORF_1
0.8424
-0.070642646
0.033887522
87
ORF sequence:
ATGGTTTGGCTACCATGGAAGTCAGAACAGAAGCTTCTCAGAAAAGAAAATTCGAATGACCATATGGCTCAGATGTACCACTCCTAG
Peptide sequence:
MVWLPWKSEQKLLRKENSNDHMAQMYHS
IRESfinder result
IRESfinder score
0.555071901
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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