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mmu_circArmh3_572_1
Basic information of circular RNA
PanCircBase ID:
mmu_circArmh3_572_1
mm39_Chr. Position ID:
chr19|45874390|45924866|-
Gene name:
Armh3
Transcript:
ENSMUST00000045396.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
23,22,21,20,19,18,17
Exon/intron offsets:
0,5256,6114,35665,46399,47834,50410
Genomic length:
50476
Exon/intron sizes in nt:
76,127,83,89,61,70,66
Flanking exon/introns:
chr19:45834625-45874390|chr19:45924866-45928883
Splice length:
572
Other database IDs:
circBase: hsa_circ_0019629
Human Ortholog IDs:
Mature spliced Sequence:
GATCAGTATGCCAATGCATTTTTACATGACGACAACATGAATTTTCGAGTAAACTTACATAGAATGCCCATGAGACACAGGAAGAAGGCTGCTGACAAGAACCTTCCCTGCCGGCCCCTGGTGTGTGCAGTCCTGGACCTAATGGTGGAGTTCATTGTAACACACATGATGAAGGAATTCCCTATGGATCTCTATCTGCGGTGTGTCCAGGTAGTGCATAAACTGCTGTGTTACCAGAAGAAGTGTAGAGTTCGCCTGCATTATACCTGGCGGGAGCTCTGGTCAGCCTTGATAAACTTGCTGAAGTTCCTTATGTCAAATGAAACTGTACTTTTGGCCAAGCACAACATTTTTACATTGGCCCTTATGATTGTGAACCTATTTAACATGTTTATCACATACGGTGACACATTCCTGCCAACCCCCAGCAGCTACGATGAGCTTTACTATGAAATTATCCGCATGCACCAGAGCTTTGACAACCTCTACTCCATGGTCCTTCGGCTTTCCACCAACGCTGGCCAGTGGAAGGAAGCAGCAAGCAAGGTGACACACGCACTGGTGAATATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCATGGTCCTTCGGCTTT
60.04
TCAGCAGCCTTCTTCCTGTG
59.96
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCATGGTCCTTCGGCTTT
60.04
GCAGCCTTCTTCCTGTGTCT
59.96
176
PCR template sequence:
GCTTTGACAACCTCTACTCCATGGTCCTTCGGCTTTCCACCAACGCTGGCCAGTGGAAGGAAGCAGCAAGCAAGGTGACACACGCACTGGTGAATATCAGGATCAGTATGCCAATGCATTTTTACATGACGACAACATGAATTTTCGAGTAAACTTACATAGAATGCCCATGAGACACAGGAAGAAGGCTGCTGACAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-218-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGTGAATATCAGGATCAGTATGCCA
siRNA sets
ACTGATCCTGATATTCACC, TACTGATCCTGATATTCAC, ATACTGATCCTGATATTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARMH3_572_1_ORF_1
1.2591
0.172805163
0.873777154
576
ORF sequence:
ATGAATTTTCGAGTAAACTTACATAGAATGCCCATGAGACACAGGAAGAAGGCTGCTGACAAGAACCTTCCCTGCCGGCCCCTGGTGTGTGCAGTCCTGGACCTAATGGTGGAGTTCATTGTAACACACATGATGAAGGAATTCCCTATGGATCTCTATCTGCGGTGTGTCCAGGTAGTGCATAAACTGCTGTGTTACCAGAAGAAGTGTAGAGTTCGCCTGCATTATACCTGGCGGGAGCTCTGGTCAGCCTTGATAAACTTGCTGAAGTTCCTTATGTCAAATGAAACTGTACTTTTGGCCAAGCACAACATTTTTACATTGGCCCTTATGATTGTGAACCTATTTAACATGTTTATCACATACGGTGACACATTCCTGCCAACCCCCAGCAGCTACGATGAGCTTTACTATGAAATTATCCGCATGCACCAGAGCTTTGACAACCTCTACTCCATGGTCCTTCGGCTTTCCACCAACGCTGGCCAGTGGAAGGAAGCAGCAAGCAAGGTGACACACGCACTGGTGAATATCAGGATCAGTATGCCAATGCATTTTTACATGACGACAACATGA
Peptide sequence:
MNFRVNLHRMPMRHRKKAADKNLPCRPLVCAVLDLMVEFIVTHMMKEFPMDLYLRCVQVVHKLLCYQKKCRVRLHYTWRELWSALINLLKFLMSNETVLLAKHNIFTLALMIVNLFNMFITYGDTFLPTPSSYDELYYEIIRMHQSFDNLYSMVLRLSTNAGQWKEAASKVTHALVNIRISMPMHFYMTTT
IRESfinder result
IRESfinder score
0.495697611
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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