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mmu_circCamkmt_457
Basic information of circular RNA
PanCircBase ID:
mmu_circCamkmt_457
mm39_Chr. Position ID:
chr17|85700885|85759755|+
Gene name:
Camkmt
Transcript:
ENSMUST00000095188.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
5,6,7,8,9,10
Exon/intron offsets:
0,1144,8968,38013,46069,58738
Genomic length:
58870
Exon/intron sizes in nt:
55,64,67,75,64,132
Flanking exon/introns:
chr17:85699061-85700885|chr17:85759755-85765489
Splice length:
457
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_145870
Human Ortholog IDs:
Mature spliced Sequence:
GGACCTTGCTGTGTGTGAGCTAGGGGGTGGCATGACATGCTTGGCTGGGCTCATGGTTGCTATTTCTGCAGATGTCAAAGAAGTTCTGCTAACTGATGGGAATGAAAAGGCCATCAGAAATGTGGACAGCATCATCGCATGCAATAAGAAGACTGGTGTGTTTAAGACTCCGAAAATATCAAGCCGCGTTTTACGATGGGATAATGAGACAGACGTCTCTCAACTGGAAGGACATTTTGACATTGTTATGTGTGCTGACTGCCTGTTTCTGGACCAGTACAGAGCCAGCCTTGTTGATGCCATAAAGAGATTACTCCAGCCCACAGGGAAAGCGGTGGTATTTGCCCCACGCCGAGGGAATACTTTCAACCAGTTTTGCAATCTAGCTGAAAAAGCTGGTTTCTCTCTCCAAAGACATGAAAATTACGATGAGCCCATTTCAAACTTCCACTCCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCAGTTTTGCAATCTAGCTGA
58.25
ATAGCAACCATGAGCCCAGC
60.47
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAACCAGTTTTGCAATCTAGCTGA
60.02
ATAGCAACCATGAGCCCAGC
60.47
154
PCR template sequence:
GAATACTTTCAACCAGTTTTGCAATCTAGCTGAAAAAGCTGGTTTCTCTCTCCAAAGACATGAAAATTACGATGAGCCCATTTCAAACTTCCACTCCAAGGGACCTTGCTGTGTGTGAGCTAGGGGGTGGCATGACATGCTTGGCTGGGCTCATGGTTGCTATTTCTGCAGATGTCAAAGAAGTTCTGCTAACTGATGGG
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-135a-5p(1), mmu-miR-320-3p(1), mmu-miR-185-5p(1), mmu-miR-680(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTCCACTCCAAGGGACCTTGCTGTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCAMKMT_457_ORF_1
1.0047
0.119474089
0.665102291
498
ORF sequence:
ATGAAAATTACGATGAGCCCATTTCAAACTTCCACTCCAAGGGACCTTGCTGTGTGTGAGCTAGGGGGTGGCATGACATGCTTGGCTGGGCTCATGGTTGCTATTTCTGCAGATGTCAAAGAAGTTCTGCTAACTGATGGGAATGAAAAGGCCATCAGAAATGTGGACAGCATCATCGCATGCAATAAGAAGACTGGTGTGTTTAAGACTCCGAAAATATCAAGCCGCGTTTTACGATGGGATAATGAGACAGACGTCTCTCAACTGGAAGGACATTTTGACATTGTTATGTGTGCTGACTGCCTGTTTCTGGACCAGTACAGAGCCAGCCTTGTTGATGCCATAAAGAGATTACTCCAGCCCACAGGGAAAGCGGTGGTATTTGCCCCACGCCGAGGGAATACTTTCAACCAGTTTTGCAATCTAGCTGAAAAAGCTGGTTTCTCTCTCCAAAGACATGAAAATTACGATGAGCCCATTTCAAACTTCCACTCCAAG
Peptide sequence:
MKITMSPFQTSTPRDLAVCELGGGMTCLAGLMVAISADVKEVLLTDGNEKAIRNVDSIIACNKKTGVFKTPKISSRVLRWDNETDVSQLEGHFDIVMCADCLFLDQYRASLVDAIKRLLQPTGKAVVFAPRRGNTFNQFCNLAEKAGFSLQRHENYDEPISNFHSK
IRESfinder result
IRESfinder score
0.497245269
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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