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mmu_circDlgap1_514
Basic information of circular RNA
PanCircBase ID:
mmu_circDlgap1_514
mm39_Chr. Position ID:
chr17|71093782|71116274|+
Gene name:
Dlgap1
Transcript:
ENSMUST00000133983.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
11,12
Exon/intron offsets:
0,22400
Genomic length:
22492
Exon/intron sizes in nt:
422,92
Flanking exon/introns:
chr17:71073084-71093782|chr17:71116274-71122188
Splice length:
514
Other database IDs:
CIRCpedia: MMU_CIRCpedia_223115, circAtlas: mmu-Dlgap1_0019
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CTTCCGCAGGTTCACTCGGTCCAACAGTGTGACAACTGCAGTACAGGCCGACCTGGACTTCCATGATAATCTGGAAAATTCTCTGGAGTCTATAGAGGACAATTCGTGTCCTGGCCCCATGGCCAGACAGTTCTCGCGGGACGCCAGCACCTCTACCGTCAGTATCCAGGGTTCAGGAAACCACTATCATGCCTGTGCAGCCGATGACGACTTTGACACGGATTTTGACCCCTCTATCCTGCCTCCTCCGGACCCCTGGATTGACTCTATCACAGAAGACCCTCTGGAGGCCGTTCAAAGGTCCGTGTGCCACCGGGACGGCCACTGGTTCCTGAAGCTTCTCCAGGCAGAGCGGGACCGCATGGAAGGGTGGTGCAAGCTAATGGAGAGAGAAGAGAGGGAGAACAACCTCCCAGAAGACATTCTAGGGAAAATCCGAACCGCGGTGGGCAGTGCCCAACTTCTCATGGCGCAGAAATTCTACCAGTTCAGAGAACTGTGTGAAGAGAACCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTAGGGAAAATCCGAACCGC
60.13
GGCCTGTACTGCAGTTGTCA
60.25
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAGGGAAAATCCGAACCGCG
60.46
GTCGGCCTGTACTGCAGTT
60
141
PCR template sequence:
AGAAGACATTCTAGGGAAAATCCGAACCGCGGTGGGCAGTGCCCAACTTCTCATGGCGCAGAAATTCTACCAGTTCAGAGAACTGTGTGAAGAGAACCTGCTTCCGCAGGTTCACTCGGTCCAACAGTGTGACAACTGCAGTACAGGCCGACCTGGACTTCCATGATAATCTGGAAAATTCTCTGGAGTCTATAGAGGAC
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-146a-5p(1), mmu-miR-136-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAAGAGAACCTGCTTCCGCAGGTTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDLGAP1_514_ORF_1
1.0145
0.343933705
0.795693856
462
ORF sequence:
ATGGCCAGACAGTTCTCGCGGGACGCCAGCACCTCTACCGTCAGTATCCAGGGTTCAGGAAACCACTATCATGCCTGTGCAGCCGATGACGACTTTGACACGGATTTTGACCCCTCTATCCTGCCTCCTCCGGACCCCTGGATTGACTCTATCACAGAAGACCCTCTGGAGGCCGTTCAAAGGTCCGTGTGCCACCGGGACGGCCACTGGTTCCTGAAGCTTCTCCAGGCAGAGCGGGACCGCATGGAAGGGTGGTGCAAGCTAATGGAGAGAGAAGAGAGGGAGAACAACCTCCCAGAAGACATTCTAGGGAAAATCCGAACCGCGGTGGGCAGTGCCCAACTTCTCATGGCGCAGAAATTCTACCAGTTCAGAGAACTGTGTGAAGAGAACCTGCTTCCGCAGGTTCACTCGGTCCAACAGTGTGACAACTGCAGTACAGGCCGACCTGGACTTCCATGA
Peptide sequence:
MARQFSRDASTSTVSIQGSGNHYHACAADDDFDTDFDPSILPPPDPWIDSITEDPLEAVQRSVCHRDGHWFLKLLQAERDRMEGWCKLMEREERENNLPEDILGKIRTAVGSAQLLMAQKFYQFRELCEENLLPQVHSVQQCDNCSTGRPGLP
IRESfinder result
IRESfinder score
0.453181798
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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