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mmu_circArmh3_197
Basic information of circular RNA
PanCircBase ID:
mmu_circArmh3_197
mm39_Chr. Position ID:
chr19|45920789|45924866|-
Gene name:
Armh3
Transcript:
ENSMUST00000045396.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
19,18,17
Exon/intron offsets:
0,1435,4011
Genomic length:
4077
Exon/intron sizes in nt:
61,70,66
Flanking exon/introns:
chr19:45910144-45920789|chr19:45924866-45928883
Splice length:
197
Other database IDs:
CIRCpedia: MMU_CIRCpedia_20742, circAtlas: mmu-9130011E15Rik_0050
circBase: hsa_circ_0019640, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_167324
Human Ortholog IDs:
Mature spliced Sequence:
GATCAGTATGCCAATGCATTTTTACATGACGACAACATGAATTTTCGAGTAAACTTACATAGAATGCCCATGAGACACAGGAAGAAGGCTGCTGACAAGAACCTTCCCTGCCGGCCCCTGGTGTGTGCAGTCCTGGACCTAATGGTGGAGTTCATTGTAACACACATGATGAAGGAATTCCCTATGGATCTCTATCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGTCCTGGACCTAATGG
59.09
TCAGCAGCCTTCTTCCTGTG
59.96
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGTCCTGGACCTAATGG
59.09
TGTCAGCAGCCTTCTTCCTG
59.96
169
PCR template sequence:
AACCTTCCCTGCCGGCCCCTGGTGTGTGCAGTCCTGGACCTAATGGTGGAGTTCATTGTAACACACATGATGAAGGAATTCCCTATGGATCTCTATCTGATCAGTATGCCAATGCATTTTTACATGACGACAACATGAATTTTCGAGTAAACTTACATAGAATGCCCATGAGACACAGGAAGAAGGCTGCTGACAA
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-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGATCTCTATCTGATCAGTATGCCA
siRNA sets
ATACTGATCAGATAGAGAT, CATACTGATCAGATAGAGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARMH3_197_ORF_1
1.1062
0.081638732
0.196090224
201
ORF sequence:
ATGAATTTTCGAGTAAACTTACATAGAATGCCCATGAGACACAGGAAGAAGGCTGCTGACAAGAACCTTCCCTGCCGGCCCCTGGTGTGTGCAGTCCTGGACCTAATGGTGGAGTTCATTGTAACACACATGATGAAGGAATTCCCTATGGATCTCTATCTGATCAGTATGCCAATGCATTTTTACATGACGACAACATGA
Peptide sequence:
MNFRVNLHRMPMRHRKKAADKNLPCRPLVCAVLDLMVEFIVTHMMKEFPMDLYLISMPMHFYMTTT
IRESfinder result
IRESfinder score
0.387896961
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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