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mmu_circArmc9_838
Basic information of circular RNA
PanCircBase ID:
mmu_circArmc9_838
mm39_Chr. Position ID:
chr1|86113826|86135765|+
Gene name:
Armc9
Transcript:
ENSMUST00000123618.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
10,11,12,13,14,15,16,17,18
Exon/intron offsets:
0,2772,4905,8172,10214,12137,13733,16385,21848
Genomic length:
21939
Exon/intron sizes in nt:
35,112,93,91,124,140,77,75,91
Flanking exon/introns:
chr1:86104634-86113826|chr1:86135765-86140771
Splice length:
838
Other database IDs:
CIRCpedia: MMU_CIRCpedia_225253, circAtlas: mmu-Armc9_0014
circBase: hsa_circ_0058659
Human Ortholog IDs:
Mature spliced Sequence:
GCCTCAACCATGTTGCGAGCCTCCTTGGCACCTGAGAAGCTGAAGGATGTCCCGCTACTGCCCTCCCTGGATTATGAGAAGCTGAAGAAGGATTTGATCTGGGGGAGTGACCGCTTGAAAGCCTTCTTGTTGCAGGCTCTGCGCTGGCGCTTGACCACATCCCATCCGGGGGAGCAGAGGGAGACAGTCCTGCAAGCCTACATCAGCAATGACCTCTTGGATTGCCACAGCCATAACCAGAGGAGTGTGCTGCAGCTGCTGCACTCCAAGAGCGAGGCTGTGCGGCAGTACATGGCCAGGCTCATCAATGCCCTGGCGTCACTGGCTGAAGGTCGCCTGTACCTGGCCCAGAACACAAAGGTGCTGCGGATGCTGGAGGGAAGGCTCAAGGAGGAAGACAAGGATGTCATCACTCGTGAGAATGTCCTCGGGGCCTTGCAGAAGTTCAGCCTCAGGCGGCCACTGCAGACAGCGATGATTCGAGATGGCCTCATCTTCTGGCTGATCGACCTACTGAAGGACCCTGACTGCCTGTCTGACTACACATTGGAGTACTCCGTGGCTTTGCTCATGAACCTCTGCCTCCGCAGTGCAGGAAAGAACATGTGTGCTAAGGTGGCAGGGCTCATGCTGAAAGTTCTTTCGGATCTCCTTGGACACGAAAACCATGAGATCCAGCCGTATGTGAATGGAGCCCTGTACAGCATCCTCTCCATCCCGTCCATTCGAGAGGAGGCCAGAGCCATGGGAATGGAGGATATCCTGCGATGCTTCATCAAAGAAGGCAACGCTGAAATGATCCGCCAGATAGAGTTTATCATCAAGCAGCTGAATTCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGCCATGGGAATGGAGGA
60.33
TCAGCTTCTCAGGTGCCAAG
59.96
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGCCATGGGAATGGAGGA
60.33
CTTCAGCTTCTCAGGTGCCA
59.96
145
PCR template sequence:
AGAGCCATGGGAATGGAGGATATCCTGCGATGCTTCATCAAAGAAGGCAACGCTGAAATGATCCGCCAGATAGAGTTTATCATCAAGCAGCTGAATTCTGGCCTCAACCATGTTGCGAGCCTCCTTGGCACCTGAGAAGCTGAAGGATGTCCCGCTACTGCCCTCCCTGGATTATGAGAAGCTGAAGAAGGATTTGATCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-709(1), mmu-miR-511-3p(1), mmu-miR-697(1), mmu-miR-1904(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCTGAATTCTGGCCTCAACCATGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARMC9_838_ORF_1
1.2866
0.478213562
0.995035459
864
ORF sequence:
ATGTTGCGAGCCTCCTTGGCACCTGAGAAGCTGAAGGATGTCCCGCTACTGCCCTCCCTGGATTATGAGAAGCTGAAGAAGGATTTGATCTGGGGGAGTGACCGCTTGAAAGCCTTCTTGTTGCAGGCTCTGCGCTGGCGCTTGACCACATCCCATCCGGGGGAGCAGAGGGAGACAGTCCTGCAAGCCTACATCAGCAATGACCTCTTGGATTGCCACAGCCATAACCAGAGGAGTGTGCTGCAGCTGCTGCACTCCAAGAGCGAGGCTGTGCGGCAGTACATGGCCAGGCTCATCAATGCCCTGGCGTCACTGGCTGAAGGTCGCCTGTACCTGGCCCAGAACACAAAGGTGCTGCGGATGCTGGAGGGAAGGCTCAAGGAGGAAGACAAGGATGTCATCACTCGTGAGAATGTCCTCGGGGCCTTGCAGAAGTTCAGCCTCAGGCGGCCACTGCAGACAGCGATGATTCGAGATGGCCTCATCTTCTGGCTGATCGACCTACTGAAGGACCCTGACTGCCTGTCTGACTACACATTGGAGTACTCCGTGGCTTTGCTCATGAACCTCTGCCTCCGCAGTGCAGGAAAGAACATGTGTGCTAAGGTGGCAGGGCTCATGCTGAAAGTTCTTTCGGATCTCCTTGGACACGAAAACCATGAGATCCAGCCGTATGTGAATGGAGCCCTGTACAGCATCCTCTCCATCCCGTCCATTCGAGAGGAGGCCAGAGCCATGGGAATGGAGGATATCCTGCGATGCTTCATCAAAGAAGGCAACGCTGAAATGATCCGCCAGATAGAGTTTATCATCAAGCAGCTGAATTCTGGCCTCAACCATGTTGCGAGCCTCCTTGGCACCTGA
Peptide sequence:
MLRASLAPEKLKDVPLLPSLDYEKLKKDLIWGSDRLKAFLLQALRWRLTTSHPGEQRETVLQAYISNDLLDCHSHNQRSVLQLLHSKSEAVRQYMARLINALASLAEGRLYLAQNTKVLRMLEGRLKEEDKDVITRENVLGALQKFSLRRPLQTAMIRDGLIFWLIDLLKDPDCLSDYTLEYSVALLMNLCLRSAGKNMCAKVAGLMLKVLSDLLGHENHEIQPYVNGALYSILSIPSIREEARAMGMEDILRCFIKEGNAEMIRQIEFIIKQLNSGLNHVASLLGT
IRESfinder result
IRESfinder score
0.249212206
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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