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mmu_ciGm18562_397
Basic information of circular RNA
PanCircBase ID:
mmu_ciGm18562_397
mm39_Chr. Position ID:
chr13|13505497|13505894|+
Gene name:
Gm18562
Transcript:
ENSMUST00000209949.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
397
Exon/intron sizes in nt:
397
Flanking exon/introns:
chr13:13505497-13510200
Splice length:
397
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGGGTTTTCCATACATTCCATGCTTTTTCAAATTGAAGAAAAACAAAGTGACAATTTTATATTTGGCTTAATTTTAGTGATATGAATGGTCTATGCATACCCTAGATTTCTTGAGAAATTTAAGCTCTAGAGGCCAGGTCCTGCCCTACAGAGAGTGAGGACCCTGCCCCCATGTTTTTAAACACTAGTTTCATGACTCTCAGCCTTCCTAATGCTGGAACCTTTTAATAGAGTTCCTCATGTTGTGGTGACCCCAACCATAAAAGTATCTTTGTTGCTACTTCATAACTGCAAATTTGCTATGGTTATAAATTATAGTGTAAATATCTGTACTTTCTGATGGTCTTAGGTGATACCTGTGAAAGGTCATTCAACCCCAAAGAGCTCATGACCCAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGTGAAAGGTCATTCAACCC
59.44
ATGCATAGACCATTCATATCACT
55.32
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTGAAAGGTCATTCAACCCC
59.44
TATGCATAGACCATTCATATCACT
55.29
140
PCR template sequence:
TTGCTATGGTTATAAATTATAGTGTAAATATCTGTACTTTCTGATGGTCTTAGGTGATACCTGTGAAAGGTCATTCAACCCCAAAGAGCTCATGACCCACGTGGGTTTTCCATACATTCCATGCTTTTTCAAATTGAAGAAAAACAAAGTGACAATTTTATATTTGGCTTAATTTTAGTGATATGAATGGTCTATGCATA
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-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-3065-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTCATGACCCACGTGGGTTTTCCAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIGM18562_397_ORF_2
0.7073
-0.139042962
0.027015937
129
ORF sequence:
ATGGTCTTAGGTGATACCTGTGAAAGGTCATTCAACCCCAAAGAGCTCATGACCCACGTGGGTTTTCCATACATTCCATGCTTTTTCAAATTGAAGAAAAACAAAGTGACAATTTTATATTTGGCTTAA
Peptide sequence:
MVLGDTCERSFNPKELMTHVGFPYIPCFFKLKKNKVTILYLA
IRESfinder result
IRESfinder score
0.868170362
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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