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mmu_circArmh3_842
Basic information of circular RNA
PanCircBase ID:
mmu_circArmh3_842
mm39_Chr. Position ID:
chr19|45945118|45967151|-
Gene name:
Armh3
Transcript:
ENSMUST00000045396.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
11,10,9,8,7,6,5,4,3,2
Exon/intron offsets:
0,1727,3633,8484,8682,9562,16143,18287,18539,21920
Genomic length:
22033
Exon/intron sizes in nt:
61,44,57,87,75,93,10,80,00,00,000
Flanking exon/introns:
chr19:45941909-45945118|chr19:45967151-45986854
Splice length:
842
Other database IDs:
circAtlas: hsa-C10orf76_0100, CIRCpedia: HSA_CIRCpedia_76884
Human Ortholog IDs:
Mature spliced Sequence:
GTTCTCTAGCCATGGCACAAGTAGAGAAACGGGGAGGCTTGCTCCGGAAATCTTCAGCCTCAAAAAAGCCTCTAAAGGAAAAAGTGGTGCTGATGTATGATGAGATTTTCATGACGGAGGACCCCAGTAAGTGTAGTCCACGGTTTTGGGAGGAACTCTTCCTCATGAAGGTGAATTTGGAGTATCTGGAAGGCAAGCTAGAGTCCCTGGATGGGGAGGAGCTGATGAAGATCAAGGACAACATTAACTGCTTATTTCAACACTGCATCCAGGCTCTGGGGGAGGAGCATCCAATCCGAGTTGTCAACGCCTTGCAGACCTTGTGTGCACTTATTCGAGGAGTCCACCAGAAGAATAAATCTACGTCTGGATTTGACATCATTAATATGCTGATGGGCTTTGACAAGGCAGAGCTGTGCATGAAGAACTTGATGGAGAGTTTGGATTCATTACTTTGTGCAGAAGGTTCTGAAAGTCTGAAGAGTTTATGTCTGAAACTTCTTCTTTGCTTGGTGACTGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAGATACTGTCCCATCCCCCAAGTCGTAGAGAGCATGGGTATGATGCTGTCGTCCTCTTGGCTTTACTGGTAAATTACAGAAAATATGAGTCTGTGAATCCTTACATTGTGAAGCTGTCTATTGTGGACGACGAGGCTACACTGAATGGAATGGGGCTTGTGATCACTCAGGCTTTATCTGAGTACAACAGGCAGTATAAAGACAAGGAAGAAGAACATCAGAGTGGGTTTTTTTCTGCTTTAACAAATATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTTGTGATCACTCAGGCT
60.04
AGATTTCCGGAGCAAGCCTC
60.11
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTTGTGATCACTCAGGCT
60.04
AGGCTGAAGATTTCCGGAGC
60.11
158
PCR template sequence:
GGGGCTTGTGATCACTCAGGCTTTATCTGAGTACAACAGGCAGTATAAAGACAAGGAAGAAGAACATCAGAGTGGGTTTTTTTCTGCTTTAACAAATATGGTTCTCTAGCCATGGCACAAGTAGAGAAACGGGGAGGCTTGCTCCGGAAATCTTCAGCCTCAAAAAAGCCTCTAAAGGAAAAAGTGGTGCTGATGTATGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-150-5p(1), mmu-miR-29b-3p(1), mmu-miR-29c-3p(1), mmu-miR-216a-5p(1), mmu-miR-467b-5p(1), mmu-miR-673-5p(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTAACAAATATGGTTCTCTAGCCAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARMH3_842_ORF_1
1.1548
0.212547862
0.978028422
840
ORF sequence:
ATGGCACAAGTAGAGAAACGGGGAGGCTTGCTCCGGAAATCTTCAGCCTCAAAAAAGCCTCTAAAGGAAAAAGTGGTGCTGATGTATGATGAGATTTTCATGACGGAGGACCCCAGTAAGTGTAGTCCACGGTTTTGGGAGGAACTCTTCCTCATGAAGGTGAATTTGGAGTATCTGGAAGGCAAGCTAGAGTCCCTGGATGGGGAGGAGCTGATGAAGATCAAGGACAACATTAACTGCTTATTTCAACACTGCATCCAGGCTCTGGGGGAGGAGCATCCAATCCGAGTTGTCAACGCCTTGCAGACCTTGTGTGCACTTATTCGAGGAGTCCACCAGAAGAATAAATCTACGTCTGGATTTGACATCATTAATATGCTGATGGGCTTTGACAAGGCAGAGCTGTGCATGAAGAACTTGATGGAGAGTTTGGATTCATTACTTTGTGCAGAAGGTTCTGAAAGTCTGAAGAGTTTATGTCTGAAACTTCTTCTTTGCTTGGTGACTGTCACAGATAATATCAGCCAGAACACTATCCTGGAATATGTAATGATCAACAGTATATTCGAAGCAATTTTACAGATACTGTCCCATCCCCCAAGTCGTAGAGAGCATGGGTATGATGCTGTCGTCCTCTTGGCTTTACTGGTAAATTACAGAAAATATGAGTCTGTGAATCCTTACATTGTGAAGCTGTCTATTGTGGACGACGAGGCTACACTGAATGGAATGGGGCTTGTGATCACTCAGGCTTTATCTGAGTACAACAGGCAGTATAAAGACAAGGAAGAAGAACATCAGAGTGGGTTTTTTTCTGCTTTAACAAATATGGTTCTCTAG
Peptide sequence:
MAQVEKRGGLLRKSSASKKPLKEKVVLMYDEIFMTEDPSKCSPRFWEELFLMKVNLEYLEGKLESLDGEELMKIKDNINCLFQHCIQALGEEHPIRVVNALQTLCALIRGVHQKNKSTSGFDIINMLMGFDKAELCMKNLMESLDSLLCAEGSESLKSLCLKLLLCLVTVTDNISQNTILEYVMINSIFEAILQILSHPPSRREHGYDAVVLLALLVNYRKYESVNPYIVKLSIVDDEATLNGMGLVITQALSEYNRQYKDKEEEHQSGFFSALTNMVL
IRESfinder result
IRESfinder score
0.589025263
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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