top of page
mmu_circCamta1_189
Basic information of circular RNA
PanCircBase ID:
mmu_circCamta1_189
mm39_Chr. Position ID:
chr4|151914874|151920340|-
Gene name:
Camta1
Transcript:
ENSMUST00000169423.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,5396
Genomic length:
5466
Exon/intron sizes in nt:
119,70
Flanking exon/introns:
chr4:151670939-151914874|chr4:151920340-151946081
Splice length:
189
Other database IDs:
circBase: mmu_circ_0001306, CIRCpedia: MMU_CIRCpedia_10253, circAtlas: mmu-Camta1_0014
circBase: hsa_circ_0009541, circAtlas: hsa-CAMTA1_0022, CIRCpedia: HSA_CIRCpedia_32836
Human Ortholog IDs:
Mature spliced Sequence:
AGCGTTTCCCAAAGTGTATTCTGCGGAACTAGCACCTACTGTGTTCTCAACACCGTGCCACCTATAGAAGATGATCATGGGAACAGCAATAGTAGTCATGTAAAAATCTTTTTACCGAAAAAGCTGCTTGAATGTCTGCCGAAATGTTCAAGTTTACCCAAAGAGAGGCACCGCTGGAACACTAATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCTGCTTGAATGTCTGCC
59.11
ATAGGTGGCACGGTGTTGAG
60.04
134
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGCTTGAATGTCTGCCG
59.86
ATAGGTGGCACGGTGTTGAG
60.04
132
PCR template sequence:
TCATGTAAAAATCTTTTTACCGAAAAAGCTGCTTGAATGTCTGCCGAAATGTTCAAGTTTACCCAAAGAGAGGCACCGCTGGAACACTAATGAGAGCGTTTCCCAAAGTGTATTCTGCGGAACTAGCACCTACTGTGTTCTCAACACCGTGCCACCTATAGAAGATGATCATGGGAACAGCAATAGTA
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-181a-5p(1), mmu-miR-181b-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAACACTAATGAGAGCGTTTCCCAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.554275994
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
RPF, cORF
mmu_circCamta1_001
Evidence
Peptide sequence:
MRAFPKVYSAELAPTVFSTPCHL*
bottom of page