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mmu_circArmh3_210
Basic information of circular RNA
PanCircBase ID:
mmu_circArmh3_210
mm39_Chr. Position ID:
chr19|45879646|45880587|-
Gene name:
Armh3
Transcript:
ENSMUST00000045396.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
22,21
Exon/intron offsets:
0,858
Genomic length:
941
Exon/intron sizes in nt:
127,83
Flanking exon/introns:
chr19:45874466-45879646|chr19:45880587-45910055
Splice length:
210
Other database IDs:
circBase: hsa_circ_0019632, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_159
Human Ortholog IDs:
Mature spliced Sequence:
CCTTGATAAACTTGCTGAAGTTCCTTATGTCAAATGAAACTGTACTTTTGGCCAAGCACAACATTTTTACATTGGCCCTTATGATTGTGAACCTATTTAACATGTTTATCACATACGGTGACACATTCCTGCCAACCCCCAGCAGCTACGATGAGCTTTACTATGAAATTATCCGCATGCACCAGAGCTTTGACAACCTCTACTCCATGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TACGGTGACACATTCCTGCC
60.04
TGTTGTGCTTGGCCAAAAGT
59.1
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACACATTCCTGCCAACCC
60.54
TGTTGTGCTTGGCCAAAAGT
59.1
155
PCR template sequence:
ACATACGGTGACACATTCCTGCCAACCCCCAGCAGCTACGATGAGCTTTACTATGAAATTATCCGCATGCACCAGAGCTTTGACAACCTCTACTCCATGGCCTTGATAAACTTGCTGAAGTTCCTTATGTCAAATGAAACTGTACTTTTGGCCAAGCACAACATTTTTACATTGGCCCTTATGATTGTGAACCTATTTAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-218-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTACTCCATGGCCTTGATAAACTT
siRNA sets
AAGTTTATCAAGGCCATGG, TTTATCAAGGCCATGGAGT, TATCAAGGCCATGGAGTAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARMH3_210_ORF_1
1.2031
0.252168673
0.70086857
393
ORF sequence:
ATGTCAAATGAAACTGTACTTTTGGCCAAGCACAACATTTTTACATTGGCCCTTATGATTGTGAACCTATTTAACATGTTTATCACATACGGTGACACATTCCTGCCAACCCCCAGCAGCTACGATGAGCTTTACTATGAAATTATCCGCATGCACCAGAGCTTTGACAACCTCTACTCCATGGCCTTGATAAACTTGCTGAAGTTCCTTATGTCAAATGAAACTGTACTTTTGGCCAAGCACAACATTTTTACATTGGCCCTTATGATTGTGAACCTATTTAACATGTTTATCACATACGGTGACACATTCCTGCCAACCCCCAGCAGCTACGATGAGCTTTACTATGAAATTATCCGCATGCACCAGAGCTTTGACAACCTCTACTCCATG
Peptide sequence:
MSNETVLLAKHNIFTLALMIVNLFNMFITYGDTFLPTPSSYDELYYEIIRMHQSFDNLYSMALINLLKFLMSNETVLLAKHNIFTLALMIVNLFNMFITYGDTFLPTPSSYDELYYEIIRMHQSFDNLYSM
IRESfinder result
IRESfinder score
0.766750297
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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