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mmu_circErgic1_386
Basic information of circular RNA
PanCircBase ID:
mmu_circErgic1_386
mm39_Chr. Position ID:
chr17|26843563|26855020|+
Gene name:
Ergic1
Transcript:
ENSMUST00000167662.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
4,5,6,7
Exon/intron offsets:
0,4965,9827,11396
Genomic length:
11457
Exon/intron sizes in nt:
95,125,105,61
Flanking exon/introns:
chr17:26833402-26843563|chr17:26855020-26857716
Splice length:
386
Other database IDs:
circAtlas: mmu-Ergic1_0007
CIRCpedia: HSA_CIRCpedia_51189
Human Ortholog IDs:
Mature spliced Sequence:
GGTGAATGAGCTCTACGTCGATGACCCAGACAAGGACAGCGGAGGCAAAATTGACGTCAGTCTCAACATCAGTTTACCCAATTTGCACTGTGAATTGGTCGGGCTTGACATCCAAGATGAGATGGGCAGACACGAAGTGGGCCACATCGACAATTCCATGAAGATCCCGCTGAATAATGGAGCCGGCTGCCGCTTCGAGGGCCAGTTCAGCATCAACAAGGTTCCCGGCAACTTCCATGTGTCCACACACAGTGCCACAGCGCAGCCACAGAACCCGGACATGACACATACCATCCATAAACTCTCCTTTGGGGATACGCTACAGGTCCAGAATGTTCACGGGGCTTTCAATGCTCTTGGGGGAGCAGACAGACTCACCTCCAACC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGATACGCTACAGGTCCAG
59.33
TGAGACTGACGTCAATTTTGCC
59.45
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGATACGCTACAGGTCCAG
59.33
ACTGATGTTGAGACTGACGTCA
59.38
148
PCR template sequence:
CATACCATCCATAAACTCTCCTTTGGGGATACGCTACAGGTCCAGAATGTTCACGGGGCTTTCAATGCTCTTGGGGGAGCAGACAGACTCACCTCCAACCGGTGAATGAGCTCTACGTCGATGACCCAGACAAGGACAGCGGAGGCAAAATTGACGTCAGTCTCAACATCAGTTTACCCAATTTGCACTGTGAATTGGTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-19b-3p(1), mmu-miR-335-5p(1), mmu-miR-19a-3p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCACCTCCAACCGGTGAATGAGCTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCERGIC1_386_ORF_1
1.1748
0.346417799
0.571582904
270
ORF sequence:
ATGGGCAGACACGAAGTGGGCCACATCGACAATTCCATGAAGATCCCGCTGAATAATGGAGCCGGCTGCCGCTTCGAGGGCCAGTTCAGCATCAACAAGGTTCCCGGCAACTTCCATGTGTCCACACACAGTGCCACAGCGCAGCCACAGAACCCGGACATGACACATACCATCCATAAACTCTCCTTTGGGGATACGCTACAGGTCCAGAATGTTCACGGGGCTTTCAATGCTCTTGGGGGAGCAGACAGACTCACCTCCAACCGGTGA
Peptide sequence:
MGRHEVGHIDNSMKIPLNNGAGCRFEGQFSINKVPGNFHVSTHSATAQPQNPDMTHTIHKLSFGDTLQVQNVHGAFNALGGADRLTSNR
IRESfinder result
IRESfinder score
0.386146554
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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