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mmu_circArmh3_378
Basic information of circular RNA
PanCircBase ID:
mmu_circArmh3_378
mm39_Chr. Position ID:
chr19|45928883|45941909|-
Gene name:
Armh3
Transcript:
ENSMUST00000045396.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
16,15,14,13,12
Exon/intron offsets:
0,5557,10217,12180,12979
Genomic length:
13026
Exon/intron sizes in nt:
59,102,94,76,47
Flanking exon/introns:
chr19:45924866-45928883|chr19:45941909-45945118
Splice length:
378
Other database IDs:
CIRCpedia: MMU_CIRCpedia_217688, circAtlas: mmu-9130011E15Rik_0052
Human Ortholog IDs:
Mature spliced Sequence:
GTGGGCAGCATGTTCATAGCAGACGCCCATGAGAAACTCTCAGTACAAACCAATGAAGCCATTCTTCTGGCACTCTATGAAGCTGTCCATTTAAATCGAAACTTCATCACAGTTTTAGCTCAGAGCCATCCAGAAATGGGGTTGGTGACAGCCCCTGCCAGCCCTACTCCTACAACCCCAGCCACACCCCTTGGGACTACACCGCCCTCCTCTGACGTTATAAGTTCTGTGGAACTCTCACTGGATGCAGATGTACAGACCAGTAATCTACTGATAACCTTCTTAAAGTATAGCTCAATTGTCATGCAGGACACGAAAGATGAACACAGGCTTCACAGTGGCAAGCTCTGTCTGATTATCCTCACATGCATTGCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGGCTTCACAGTGGCAAG
60.82
GGACAGCTTCATAGAGTGCCA
59.79
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGGCTTCACAGTGGCAAG
60.82
TGGACAGCTTCATAGAGTGCC
59.79
142
PCR template sequence:
CTTCTTAAAGTATAGCTCAATTGTCATGCAGGACACGAAAGATGAACACAGGCTTCACAGTGGCAAGCTCTGTCTGATTATCCTCACATGCATTGCAGAGGTGGGCAGCATGTTCATAGCAGACGCCCATGAGAAACTCTCAGTACAAACCAATGAAGCCATTCTTCTGGCACTCTATGAAGCTGTCCATTTAAATCGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-298-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGCATTGCAGAGGTGGGCAGCATGT
siRNA sets
TGCCCACCTCTGCAATGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARMH3_378_ORF_1
1.0507
0.143941892
0.935369685
747
ORF sequence:
ATGTTCATAGCAGACGCCCATGAGAAACTCTCAGTACAAACCAATGAAGCCATTCTTCTGGCACTCTATGAAGCTGTCCATTTAAATCGAAACTTCATCACAGTTTTAGCTCAGAGCCATCCAGAAATGGGGTTGGTGACAGCCCCTGCCAGCCCTACTCCTACAACCCCAGCCACACCCCTTGGGACTACACCGCCCTCCTCTGACGTTATAAGTTCTGTGGAACTCTCACTGGATGCAGATGTACAGACCAGTAATCTACTGATAACCTTCTTAAAGTATAGCTCAATTGTCATGCAGGACACGAAAGATGAACACAGGCTTCACAGTGGCAAGCTCTGTCTGATTATCCTCACATGCATTGCAGAGGTGGGCAGCATGTTCATAGCAGACGCCCATGAGAAACTCTCAGTACAAACCAATGAAGCCATTCTTCTGGCACTCTATGAAGCTGTCCATTTAAATCGAAACTTCATCACAGTTTTAGCTCAGAGCCATCCAGAAATGGGGTTGGTGACAGCCCCTGCCAGCCCTACTCCTACAACCCCAGCCACACCCCTTGGGACTACACCGCCCTCCTCTGACGTTATAAGTTCTGTGGAACTCTCACTGGATGCAGATGTACAGACCAGTAATCTACTGATAACCTTCTTAAAGTATAGCTCAATTGTCATGCAGGACACGAAAGATGAACACAGGCTTCACAGTGGCAAGCTCTGTCTGATTATCCTCACATGCATTGCAGAG
Peptide sequence:
MFIADAHEKLSVQTNEAILLALYEAVHLNRNFITVLAQSHPEMGLVTAPASPTPTTPATPLGTTPPSSDVISSVELSLDADVQTSNLLITFLKYSSIVMQDTKDEHRLHSGKLCLIILTCIAEVGSMFIADAHEKLSVQTNEAILLALYEAVHLNRNFITVLAQSHPEMGLVTAPASPTPTTPATPLGTTPPSSDVISSVELSLDADVQTSNLLITFLKYSSIVMQDTKDEHRLHSGKLCLIILTCIAE
IRESfinder result
IRESfinder score
0.705053161
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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