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mmu_circCamsap1_415
Basic information of circular RNA
PanCircBase ID:
mmu_circCamsap1_415
mm39_Chr. Position ID:
chr2|25834437|25835285|-
Gene name:
Camsap1
Transcript:
ENSMUST00000091268.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,7,6
Exon/intron offsets:
0,516,708
Genomic length:
848
Exon/intron sizes in nt:
1,78,97,140
Flanking exon/introns:
chr2:25831481-25834437|chr2:25835285-25842689
Splice length:
415
Other database IDs:
CIRCpedia: MMU_CIRCpedia_14678, circAtlas: mmu-Camsap1_0013
Human Ortholog IDs:
Mature spliced Sequence:
ATATCTGTCTGAAGGAGGTGCCATCAATGGCTGACAGCCTCTATAACATCCGCCTTCTGAGGGAGTTTTCCAACGAGCATCTGAACAAGTGTTTCTATCTCACGCTGGAGGATATGCTGTATGCCCCCCTAGTGCTGAAGCCGAACGTTATGGTTTTTATCGCTGAGCTCTTCTGGTGGTTTGAGAACGTCAAACCAGATTTTGTTCAGCCCCGAGATATTCAAGAGCTGAAGGATGCTAAAACAGTGTTACAGCAGAAGAGCAGCCGGCCTCCTGTCCCTATCTCCAATGCAACCAAACGCAGCTTCCTGGGTAGCCCTGCTGCCATGAGCCCCGCTGACCAGCCACCATCCACCCAGCCTCTTGCTGAAGGCAGTCATCGGTACCACCTCCACTCGGAAGAACCTGAGTGTCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGACCAGCCACCATCCAC
60.38
AAAACTCCCTCAGAAGGCGG
59.96
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCATCCACCCAGCCTCTTG
60.08
TGCTCGTTGGAAAACTCCCT
59.53
147
PCR template sequence:
GCCCTGCTGCCATGAGCCCCGCTGACCAGCCACCATCCACCCAGCCTCTTGCTGAAGGCAGTCATCGGTACCACCTCCACTCGGAAGAACCTGAGTGTCTATATCTGTCTGAAGGAGGTGCCATCAATGGCTGACAGCCTCTATAACATCCGCCTTCTGAGGGAGTTTTCCAACGAGCATCTGAACAAGTGTTTCTATCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-33-5p(1), mmu-miR-214-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACCTGAGTGTCTATATCTGTCTGAA
siRNA sets
TTCAGACAGATATAGACAC, ACAGATATAGACACTCAGG, CAGATATAGACACTCAGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCAMSAP1_415_ORF_1
1.1042
0.331192482
0.768081479
423
ORF sequence:
ATGGCTGACAGCCTCTATAACATCCGCCTTCTGAGGGAGTTTTCCAACGAGCATCTGAACAAGTGTTTCTATCTCACGCTGGAGGATATGCTGTATGCCCCCCTAGTGCTGAAGCCGAACGTTATGGTTTTTATCGCTGAGCTCTTCTGGTGGTTTGAGAACGTCAAACCAGATTTTGTTCAGCCCCGAGATATTCAAGAGCTGAAGGATGCTAAAACAGTGTTACAGCAGAAGAGCAGCCGGCCTCCTGTCCCTATCTCCAATGCAACCAAACGCAGCTTCCTGGGTAGCCCTGCTGCCATGAGCCCCGCTGACCAGCCACCATCCACCCAGCCTCTTGCTGAAGGCAGTCATCGGTACCACCTCCACTCGGAAGAACCTGAGTGTCTATATCTGTCTGAAGGAGGTGCCATCAATGGCTGA
Peptide sequence:
MADSLYNIRLLREFSNEHLNKCFYLTLEDMLYAPLVLKPNVMVFIAELFWWFENVKPDFVQPRDIQELKDAKTVLQQKSSRPPVPISNATKRSFLGSPAAMSPADQPPSTQPLAEGSHRYHLHSEEPECLYLSEGGAING
IRESfinder result
IRESfinder score
0.456059713
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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