top of page
mmu_circLrrc1_544
Basic information of circular RNA
PanCircBase ID:
mmu_circLrrc1_544
mm39_Chr. Position ID:
chr9|77358639|77365409|-
Gene name:
Lrrc1
Transcript:
ENSMUST00000183873.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
10,9,8,7,6,5
Exon/intron offsets:
0,1245,3800,6032,6473,6713
Genomic length:
6770
Exon/intron sizes in nt:
84,119,145,75,64,57
Flanking exon/introns:
chr9:77349574-77358639|chr9:77365409-77375839
Splice length:
544
Other database IDs:
circAtlas: mmu-Lrrc1_0001
circBase: hsa_circ_0131929, circAtlas: hsa-LRRC1_0001, CIRCpedia: HSA_CIRCpedia_135660
Human Ortholog IDs:
Mature spliced Sequence:
TCTCTATAACCTGGCTTCACTGGAACTGAGAGAGAATCTTCTTACATATCTTCCTGACTCTCTTACCCAACTAAGGAGACTAGAAGAACTTGATTTAGGAAACAATGAAATCTACAATTTGCCAGAATCAATTGGGGCACTCCTACATCTGAAGGATCTCTGGTTGGATGGAAATCAGCTGTCTGAATTACCTCAGGAAATCGGCAATCTGAAGAACCTCCTCTGCCTAGATGTCTCTGAAAACAGGCTGGAGAGACTTCCTGAAGAGATCAGCGGCCTGACTTCTTTGACATACTTAGTCATTTCCCAGAACTTGCTAGAAACAATTCCTGAGGGCATTGGAAAACTAAAGAAGCTGTCAATCTTGAAGTTGGATCAGAACAGACTCACACAGTTGCCCGAAGCAATTGGGGATTGTGAAAATCTCACGGAGTTAGTTCTTACAGAAAACCGGCTCCTGACTTTACCTAAGAGCATTGGAAAACTTAAGAAGTTGAGCAACTTGAATGCAGACAGGAATAAATTAGTGTCATTGCCAAAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACCGGCTCCTGACTTTACC
59.68
AGTTGGGTAAGAGAGTCAGGA
57.46
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCGGCTCCTGACTTTACCT
60.54
AGTTGGGTAAGAGAGTCAGGA
57.46
167
PCR template sequence:
AGAAAACCGGCTCCTGACTTTACCTAAGAGCATTGGAAAACTTAAGAAGTTGAGCAACTTGAATGCAGACAGGAATAAATTAGTGTCATTGCCAAAAGAGTCTCTATAACCTGGCTTCACTGGAACTGAGAGAGAATCTTCTTACATATCTTCCTGACTCTCTTACCCAACTAAGGAGACTAGAAGAACTTGATTTAGGA
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-182-5p(2), mmu-miR-146a-5p(1), mmu-miR-298-5p(1), mmu-miR-425-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTGCCAAAAGAGTCTCTATAACCTG
siRNA sets
TATAGAGACTCTTTTGGCA,GTTATAGAGACTCTTTTGG,TTATAGAGACTCTTTTGGC
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
0.785668407
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page