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mmu_circArih1_353
Basic information of circular RNA
PanCircBase ID:
mmu_circArih1_353
mm39_Chr. Position ID:
chr9|59313007|59319814|-
Gene name:
Arih1
Transcript:
ENSMUST00000171975.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
10,9,8,7
Exon/intron offsets:
0,2151,2650,6700
Genomic length:
6807
Exon/intron sizes in nt:
1,31,72,43,107
Flanking exon/introns:
chr9:59310708-59313007|chr9:59319814-59322052
Splice length:
353
Other database IDs:
circAtlas: mmu-Arih1_0048
circBase: hsa_circ_0036231, circAtlas: hsa-ARIH1_0029, CIRCpedia: HSA_CIRCpedia_15584
Human Ortholog IDs:
Mature spliced Sequence:
TGCAACCGACTGTTAAAGTGGTGTCCTGCCCCAGATTGCCACCATGTTGTTAAAGTCCAGTATCCTGATGCAAAACCAGTTCGCTGCAAATGTGGCCGCCAGTTTTGCTTTAACTGTGGTGAAAATTGGCATGATCCAGTTAAATGTAAGTGGTTGAAGAAGTGGATTAAAAAGTGTGATGATGACAGTGAAACTTCTAATTGGATTGCAGCTAACACAAAGGAATGTCCCAAATGCCATGTCACAATTGAGAAGGATGGCGGTTGTAATCACATGGTCTGTCGTAACCAGAACTGTAAAGCAGAATTTTGCTGGGTGTGTCTTGGCCCTTGGGAACCGCATGGATCTGCCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGAATTTTGCTGGGTGTGT
59.93
CACATTTGCAGCGAACTGGT
59.69
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGAATTTTGCTGGGTGTGT
59.93
GCAGCGAACTGGTTTTGCAT
60.32
140
PCR template sequence:
AGGATGGCGGTTGTAATCACATGGTCTGTCGTAACCAGAACTGTAAAGCAGAATTTTGCTGGGTGTGTCTTGGCCCTTGGGAACCGCATGGATCTGCCTGTGCAACCGACTGTTAAAGTGGTGTCCTGCCCCAGATTGCCACCATGTTGTTAAAGTCCAGTATCCTGATGCAAAACCAGTTCGCTGCAAATGTGGCCGCC
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-29b-1-5p(1), mmu-miR-758-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGGATCTGCCTGTGCAACCGACTGT
siRNA sets
CAGTCGGTTGCACAGGCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARIH1_353_ORF_1
1.1395
-0.114921536
0.122919354
228
ORF sequence:
ATGATGACAGTGAAACTTCTAATTGGATTGCAGCTAACACAAAGGAATGTCCCAAATGCCATGTCACAATTGAGAAGGATGGCGGTTGTAATCACATGGTCTGTCGTAACCAGAACTGTAAAGCAGAATTTTGCTGGGTGTGTCTTGGCCCTTGGGAACCGCATGGATCTGCCTGTGCAACCGACTGTTAAAGTGGTGTCCTGCCCCAGATTGCCACCATGTTGTTAA
Peptide sequence:
MMTVKLLIGLQLTQRNVPNAMSQLRRMAVVITWSVVTRTVKQNFAGCVLALGNRMDLPVQPTVKVVSCPRLPPCC
IRESfinder result
IRESfinder score
0.395994257
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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