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mmu_circLdlrad3_261
Basic information of circular RNA
PanCircBase ID:
mmu_circLdlrad3_261
mm39_Chr. Position ID:
chr2|101888251|101900403|-
Gene name:
Ldlrad3
Transcript:
ENSMUST00000111222.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,12026
Genomic length:
12152
Exon/intron sizes in nt:
1,35,126
Flanking exon/introns:
chr2:101785519-101888251|chr2:101900403-101943973
Splice length:
261
Other database IDs:
CIRCpedia: MMU_CIRCpedia_635, circAtlas: mmu-Ldlrad3_0001
circBase: hsa_circ_0004453, circAtlas: hsa-LDLRAD3_0001, CIRCpedia: HSA_CIRCpedia_4252
Human Ortholog IDs:
Mature spliced Sequence:
CCAAAGCAAAATCAAAATGTGGCCCGACCTTCTTCCCCTGCGCCAGTGGCATCCACTGTATCATCGGCCGCTTCCGCTGCAATGGATTTGAGGACTGTCCCGACGGCAGCGACGAGGAGAACTGCACAGCGAACCCCCTGCTTTGCTCCACGGCTCGCTACCACTGCAGGAACGGCCTGTGCATCGACAAGAGCTTCATCTGCGATGGTCAGAATAACTGTCAAGACAACAGTGACGAGGAGAGCTGCGAGAGTTCTCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGTGCATCGACAAGAGCT
60.39
CCTCAAATCCATTGCAGCGG
59.9
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTTCATCTGCGATGGTCA
59.46
CCTCAAATCCATTGCAGCGG
59.9
163
PCR template sequence:
CACTGCAGGAACGGCCTGTGCATCGACAAGAGCTTCATCTGCGATGGTCAGAATAACTGTCAAGACAACAGTGACGAGGAGAGCTGCGAGAGTTCTCTAGCCAAAGCAAAATCAAAATGTGGCCCGACCTTCTTCCCCTGCGCCAGTGGCATCCACTGTATCATCGGCCGCTTCCGCTGCAATGGATTTGAGGACTGTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GAGAGTTCTCTAGCCAAAGCAAAATC
siRNA sets
ATTTTGCTTTGGCTAGAGA,TTTGCTTTGGCTAGAGAAC,GATTTTGCTTTGGCTAGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLDLRAD3_261_ORF_1
1.02
-0.069920743
0.087431527
180
ORF sequence:
ATGGATTTGAGGACTGTCCCGACGGCAGCGACGAGGAGAACTGCACAGCGAACCCCCTGCTTTGCTCCACGGCTCGCTACCACTGCAGGAACGGCCTGTGCATCGACAAGAGCTTCATCTGCGATGGTCAGAATAACTGTCAAGACAACAGTGACGAGGAGAGCTGCGAGAGTTCTCTAG
Peptide sequence:
MDLRTVPTAATRRTAQRTPCFAPRLATTAGTACASTRASSAMVRITVKTTVTRRAARVL
IRESfinder result
IRESfinder score
0.403279365
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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