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mmu_circArmt1_351
Basic information of circular RNA
PanCircBase ID:
mmu_circArmt1_351
mm39_Chr. Position ID:
chr10|4384827|4389736|+
Gene name:
Armt1
Transcript:
ENSMUST00000095893.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,4664
Genomic length:
4909
Exon/intron sizes in nt:
1,06,245
Flanking exon/introns:
chr10:4382711-4384827|chr10:4389736-4400646
Splice length:
351
Other database IDs:
circAtlas: mmu-1700052N19Rik_0002
Human Ortholog IDs:
Mature spliced Sequence:
GTCCTTTGCATATCTTACGATTAAGGACAGAACACCGCAGATCTTAACCAAGGTTATTGATACATTGCATCGACATAAAAGTGAATTTTTTGAAAAACATGGAGAGGAAGGCATTGAAGCTGAAAAGAAAGCCATCTCTCTTCTTTCTAAATTACGGAATGAACTGCAGACAGACAAACCAATCACCCCCTTGGTGGACAAGTGTGTTGACACCCACATATGGAATCAATACCTGGAGTATCAGCGGAGCCTTTTAAATGAAGGCGATGGGGAGCCACGCTGGTTCTTCTCACCCTGGTTGTTTGTAGAGTGCTACATGTATCGGAGAATTCATGAAGCCATCATGCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAATGAAGGCGATGGGGAGC
60.75
AGATCTGCGGTGTTCTGTCC
59.75
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAAATGAAGGCGATGGGGAGC
60.48
GATCTGCGGTGTTCTGTCCT
59.75
140
PCR template sequence:
TTTTAAATGAAGGCGATGGGGAGCCACGCTGGTTCTTCTCACCCTGGTTGTTTGTAGAGTGCTACATGTATCGGAGAATTCATGAAGCCATCATGCAGAGGTCCTTTGCATATCTTACGATTAAGGACAGAACACCGCAGATCTTAACCAAGGTTATTGATACATTGCATCGACATAAAAGTGAATTTTTTGAAAAACAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(2)
siRNAs for circular RNA silencing
Junction sequence
CCATCATGCAGAGGTCCTTTGCATAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARMT1_351_ORF_1
0.8563
0.166517968
0.446397342
384
ORF sequence:
ATGTATCGGAGAATTCATGAAGCCATCATGCAGAGGTCCTTTGCATATCTTACGATTAAGGACAGAACACCGCAGATCTTAACCAAGGTTATTGATACATTGCATCGACATAAAAGTGAATTTTTTGAAAAACATGGAGAGGAAGGCATTGAAGCTGAAAAGAAAGCCATCTCTCTTCTTTCTAAATTACGGAATGAACTGCAGACAGACAAACCAATCACCCCCTTGGTGGACAAGTGTGTTGACACCCACATATGGAATCAATACCTGGAGTATCAGCGGAGCCTTTTAAATGAAGGCGATGGGGAGCCACGCTGGTTCTTCTCACCCTGGTTGTTTGTAGAGTGCTACATGTATCGGAGAATTCATGAAGCCATCATGCAG
Peptide sequence:
MYRRIHEAIMQRSFAYLTIKDRTPQILTKVIDTLHRHKSEFFEKHGEEGIEAEKKAISLLSKLRNELQTDKPITPLVDKCVDTHIWNQYLEYQRSLLNEGDGEPRWFFSPWLFVECYMYRRIHEAIMQ
IRESfinder result
IRESfinder score
0.692876008
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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