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mmu_circLbr_529
Basic information of circular RNA
PanCircBase ID:
mmu_circLbr_529
mm39_Chr. Position ID:
chr1|181653186|181659797|-
Gene name:
Lbr
Transcript:
ENSMUST00000005003.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
7,6,5,4
Exon/intron offsets:
0,3090,5920,6527
Genomic length:
6611
Exon/intron sizes in nt:
55,197,193,84
Flanking exon/introns:
chr1:181649192-181653186|chr1:181659797-181663622
Splice length:
529
Other database IDs:
circBase: mmu_circ_0000124, CIRCpedia: MMU_CIRCpedia_12417, circAtlas: mmu-Lbr_0006
circBase: hsa_circ_0016654, circAtlas: hsa-LBR_0010
Human Ortholog IDs:
Mature spliced Sequence:
AAGCCGTTCGGAAACAGCGTCAGCGTGTACAACGGGGAGCCCGAACACATGGAGAAGAACGCTACGCCGTATAAAGACAAGCAGGAAAGAATCATTTTGTCAACAGAAGACAGATATATAGTTACACAGTACAGCCTTCGTCCCAGGAGAGAAGAGGTCAAAGCCAAAGAAATAGAGTCTGAGGAACAAAACCTTGTCACCAAAGGACCCGCACCTTTGGGAACCTTTCAAGTGACCACTCCACAGAGGAAGGACTTGGAGTTTGGAGGAGTACCTGGTGCGGTCCTCATCATGCTGGGCCTGCCCGCCTGCGTCCTCTTGCTGCTGCTGCAGTGCAGGCAGAAGGACCCGGGGCTGCTCCACTTCCCTCCACCTCTGCCGGCTCTCCACGAGCTGTGGGAACCCAGGGTGTGCGGCGTTTACCTCCTCTGGTTTTTCGTTCAAGCTCTCTTCCACCTTCTACCAGTTGGGAAGGTTGCAGAAGGAACACCTCTTGTTGATGGAAGAAGACTCCAGTATAGACTGAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGTTCAAGCTCTCTTCCACC
60
CTTCTCCATGTGTTCGGGCT
60.04
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGTTCAAGCTCTCTTCCACC
60
TTCTCCATGTGTTCGGGCTC
60.04
149
PCR template sequence:
TGGTTTTTCGTTCAAGCTCTCTTCCACCTTCTACCAGTTGGGAAGGTTGCAGAAGGAACACCTCTTGTTGATGGAAGAAGACTCCAGTATAGACTGAATGAAGCCGTTCGGAAACAGCGTCAGCGTGTACAACGGGGAGCCCGAACACATGGAGAAGAACGCTACGCCGTATAAAGACAAGCAGGAAAGAATCATTTTGT
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-503-5p(1), mmu-miR-666-5p(1), mmu-miR-1198-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TATAGACTGAATGAAGCCGTTCGGAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLBR_529_ORF_1
1.0859
0.188132911
0.821391656
555
ORF sequence:
ATGGAGAAGAACGCTACGCCGTATAAAGACAAGCAGGAAAGAATCATTTTGTCAACAGAAGACAGATATATAGTTACACAGTACAGCCTTCGTCCCAGGAGAGAAGAGGTCAAAGCCAAAGAAATAGAGTCTGAGGAACAAAACCTTGTCACCAAAGGACCCGCACCTTTGGGAACCTTTCAAGTGACCACTCCACAGAGGAAGGACTTGGAGTTTGGAGGAGTACCTGGTGCGGTCCTCATCATGCTGGGCCTGCCCGCCTGCGTCCTCTTGCTGCTGCTGCAGTGCAGGCAGAAGGACCCGGGGCTGCTCCACTTCCCTCCACCTCTGCCGGCTCTCCACGAGCTGTGGGAACCCAGGGTGTGCGGCGTTTACCTCCTCTGGTTTTTCGTTCAAGCTCTCTTCCACCTTCTACCAGTTGGGAAGGTTGCAGAAGGAACACCTCTTGTTGATGGAAGAAGACTCCAGTATAGACTGAATGAAGCCGTTCGGAAACAGCGTCAGCGTGTACAACGGGGAGCCCGAACACATGGAGAAGAACGCTACGCCGTATAA
Peptide sequence:
MEKNATPYKDKQERIILSTEDRYIVTQYSLRPRREEVKAKEIESEEQNLVTKGPAPLGTFQVTTPQRKDLEFGGVPGAVLIMLGLPACVLLLLLQCRQKDPGLLHFPPPLPALHELWEPRVCGVYLLWFFVQALFHLLPVGKVAEGTPLVDGRRLQYRLNEAVRKQRQRVQRGARTHGEERYAV
IRESfinder result
IRESfinder score
0.441193623
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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