top of page
mmu_circLmbrd1_594
Basic information of circular RNA
PanCircBase ID:
mmu_circLmbrd1_594
mm39_Chr. Position ID:
chr1|24782963|24801364|+
Gene name:
Lmbrd1
Transcript:
ENSMUST00000191471.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
10,11,12,13,14,15
Exon/intron offsets:
0,373,983,2922,4917,18309
Genomic length:
18401
Exon/intron sizes in nt:
65,103,105,150,79,92
Flanking exon/introns:
chr1:24770980-24782963|chr1:24801364-24801703
Splice length:
594
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_135718
Human Ortholog IDs:
Mature spliced Sequence:
ATCATTTGGGGAATATTTTTCATCCTCGTTGCGTTGCTGTTTGTAATTTCTCTCTTCCTGTCAAATTTGGATAAAGCTCTTCATTCAGCAGGAATAGATTCGGGTTTCATCATCTTCGGAACTAACCTGAGCAATCCACTGAACATGCTTTTGCCGTTGTTACAAACAGTGTTCCCTCTTGATTACATTCTTATAACAATTATTATTATGTACTTTATTTTTACTTCGATGGCAGGAATTCGAAACATTGGCATTTGGTTCTTTTGGATTAGGTTATATAAAATCAGAAGAGGGCGAACCAGGCCTCAGGCACTCTTATTTCTCTGCATGATCCTCCTGCTCATTGTCCTTCATACCAGCTACATGATCTACAGTCTCGCGCCTCAGTACGTGATGTACGGAAGCCAGAATTACTTAATAGAGAGCAATATAACTTCTGATGCCCATAAAGGCAATTCAACCCTCGCTGTGCCAAAAAGATGTGACGCAGATGCCCCTAAAGATCAGTGTACTGTTACCCGAACATACATTTTCCTCCACAAGTTCTGGTTCTTCAGTGCTGCATACTATTTTGGTAACTGGGCCTTTCTCGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGGTTCTTCAGTGCTGCA
59.53
TCCTGCTGAATGAAGAGCTT
56.83
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGGTTCTTCAGTGCTGCA
59.53
TTCCTGCTGAATGAAGAGCT
56.83
144
PCR template sequence:
CCCTAAAGATCAGTGTACTGTTACCCGAACATACATTTTCCTCCACAAGTTCTGGTTCTTCAGTGCTGCATACTATTTTGGTAACTGGGCCTTTCTCGTGATCATTTGGGGAATATTTTTCATCCTCGTTGCGTTGCTGTTTGTAATTTCTCTCTTCCTGTCAAATTTGGATAAAGCTCTTCATTCAGCAGGAATAGATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-199a-5p(1), mmu-miR-101a-3p(1), mmu-miR-370-3p(1), mmu-miR-680(1), mmu-miR-344d-3p(1), mmu-miR-539-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCCTTTCTCGTGATCATTTGGGGAA
siRNA sets
CAAATGATCACGAGAAAGG, AAATGATCACGAGAAAGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLMBRD1_594_ORF_1
0.7778
-0.016382812
0.974479082
1044
ORF sequence:
ATGCTTTTGCCGTTGTTACAAACAGTGTTCCCTCTTGATTACATTCTTATAACAATTATTATTATGTACTTTATTTTTACTTCGATGGCAGGAATTCGAAACATTGGCATTTGGTTCTTTTGGATTAGGTTATATAAAATCAGAAGAGGGCGAACCAGGCCTCAGGCACTCTTATTTCTCTGCATGATCCTCCTGCTCATTGTCCTTCATACCAGCTACATGATCTACAGTCTCGCGCCTCAGTACGTGATGTACGGAAGCCAGAATTACTTAATAGAGAGCAATATAACTTCTGATGCCCATAAAGGCAATTCAACCCTCGCTGTGCCAAAAAGATGTGACGCAGATGCCCCTAAAGATCAGTGTACTGTTACCCGAACATACATTTTCCTCCACAAGTTCTGGTTCTTCAGTGCTGCATACTATTTTGGTAACTGGGCCTTTCTCGTGATCATTTGGGGAATATTTTTCATCCTCGTTGCGTTGCTGTTTGTAATTTCTCTCTTCCTGTCAAATTTGGATAAAGCTCTTCATTCAGCAGGAATAGATTCGGGTTTCATCATCTTCGGAACTAACCTGAGCAATCCACTGAACATGCTTTTGCCGTTGTTACAAACAGTGTTCCCTCTTGATTACATTCTTATAACAATTATTATTATGTACTTTATTTTTACTTCGATGGCAGGAATTCGAAACATTGGCATTTGGTTCTTTTGGATTAGGTTATATAAAATCAGAAGAGGGCGAACCAGGCCTCAGGCACTCTTATTTCTCTGCATGATCCTCCTGCTCATTGTCCTTCATACCAGCTACATGATCTACAGTCTCGCGCCTCAGTACGTGATGTACGGAAGCCAGAATTACTTAATAGAGAGCAATATAACTTCTGATGCCCATAAAGGCAATTCAACCCTCGCTGTGCCAAAAAGATGTGACGCAGATGCCCCTAAAGATCAGTGTACTGTTACCCGAACATACATTTTCCTCCACAAGTTCTGGTTCTTCAGTGCTGCATACTATTTTGGTAACTGGGCCTTTCTCGTG
Peptide sequence:
MLLPLLQTVFPLDYILITIIIMYFIFTSMAGIRNIGIWFFWIRLYKIRRGRTRPQALLFLCMILLLIVLHTSYMIYSLAPQYVMYGSQNYLIESNITSDAHKGNSTLAVPKRCDADAPKDQCTVTRTYIFLHKFWFFSAAYYFGNWAFLVIIWGIFFILVALLFVISLFLSNLDKALHSAGIDSGFIIFGTNLSNPLNMLLPLLQTVFPLDYILITIIIMYFIFTSMAGIRNIGIWFFWIRLYKIRRGRTRPQALLFLCMILLLIVLHTSYMIYSLAPQYVMYGSQNYLIESNITSDAHKGNSTLAVPKRCDADAPKDQCTVTRTYIFLHKFWFFSAAYYFGNWAFLV
IRESfinder result
IRESfinder score
0.778957593
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page