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mmu_circLmln_642
Basic information of circular RNA
PanCircBase ID:
mmu_circLmln_642
mm39_Chr. Position ID:
chr16|32903388|32925211|+
Gene name:
Lmln
Transcript:
ENSMUST00000023497.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
8,9,10,11,12,13
Exon/intron offsets:
0,5083,6246,8267,13882,21690
Genomic length:
21823
Exon/intron sizes in nt:
9,51,18,10,87,71,11,130
Flanking exon/introns:
chr16:32901406-32903388|chr16:32925211-32927383
Splice length:
642
Other database IDs:
circAtlas: mmu-Lmln_0022
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGCTTCTCTGCTGGTCTTTTTGCATTCTACCATGATCAAGATGGAAACCCCCTGACTTCAAGGTCTGCAGATGGCCTCCCGCCCTTCAACTATAGTCTTGGCTTGTATCAGTGGAGTGATAAAGTGGTTCGGAAAGTGGAGAGATTGTGGAATGTTCGAGATAACAAGATAGTTCGCCACACTGTGTATCTCCTAGTAACACCGCGTGTTGTTGAAGAAGCTCGGAAGCATTTTAACTGTCCGGTCCTCGAGGGCATGGAGCTTGAAAACCAAGGCGGGATGGGCACGGAGCTGAACCACTGGGAGAAGCGCTTGCTCGAGAATGAAGCAATGACTGGTTCCCACACCCAGAACAGAGTCCTGTCTCGGATCACTCTGGCGTTAATGGAGGACACTGGCTGGTACAAAGCCAATTACAGCATGGCTGAGAAACTCGACTGGGGCCGAGGACTGGGCTGTGAATTTGTCAGGAAGAGCTGTAAATTCTGGATTGATCAGCACAGGCAAAGGAGGCAGGTGCCGAGCCCGTACTGTGACACACTCAGAAGTAACCCGCTGCAGCTGACCTGCAGACAGGACCAGAGAGCCGTCGCTGTGTGTAACCTGCAGAGGTTTCCTAACCCCTTACCACCCGAGTACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCAGACAGGACCAGAGAG
59.47
AGACCTTGAAGTCAGGGGGT
60.1
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCAGACAGGACCAGAGAG
59.47
GCAGACCTTGAAGTCAGGGG
60.32
144
PCR template sequence:
CAGAAGTAACCCGCTGCAGCTGACCTGCAGACAGGACCAGAGAGCCGTCGCTGTGTGTAACCTGCAGAGGTTTCCTAACCCCTTACCACCCGAGTACCAGGGCTTCTCTGCTGGTCTTTTTGCATTCTACCATGATCAAGATGGAAACCCCCTGACTTCAAGGTCTGCAGATGGCCTCCCGCCCTTCAACTATAGTCTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-140-5p(1), mmu-miR-27a-3p(1), mmu-miR-205-5p(1), mmu-miR-381-3p(1), mmu-miR-128-3p(1), mmu-miR-136-5p(1), mmu-miR-125b-1-3p(1), mmu-miR-207(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCCGAGTACCAGGGCTTCTCTGCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLMLN_642_ORF_1
0.9639
0.237694499
0.99273078
1029
ORF sequence:
ATGGAGCTTGAAAACCAAGGCGGGATGGGCACGGAGCTGAACCACTGGGAGAAGCGCTTGCTCGAGAATGAAGCAATGACTGGTTCCCACACCCAGAACAGAGTCCTGTCTCGGATCACTCTGGCGTTAATGGAGGACACTGGCTGGTACAAAGCCAATTACAGCATGGCTGAGAAACTCGACTGGGGCCGAGGACTGGGCTGTGAATTTGTCAGGAAGAGCTGTAAATTCTGGATTGATCAGCACAGGCAAAGGAGGCAGGTGCCGAGCCCGTACTGTGACACACTCAGAAGTAACCCGCTGCAGCTGACCTGCAGACAGGACCAGAGAGCCGTCGCTGTGTGTAACCTGCAGAGGTTTCCTAACCCCTTACCACCCGAGTACCAGGGCTTCTCTGCTGGTCTTTTTGCATTCTACCATGATCAAGATGGAAACCCCCTGACTTCAAGGTCTGCAGATGGCCTCCCGCCCTTCAACTATAGTCTTGGCTTGTATCAGTGGAGTGATAAAGTGGTTCGGAAAGTGGAGAGATTGTGGAATGTTCGAGATAACAAGATAGTTCGCCACACTGTGTATCTCCTAGTAACACCGCGTGTTGTTGAAGAAGCTCGGAAGCATTTTAACTGTCCGGTCCTCGAGGGCATGGAGCTTGAAAACCAAGGCGGGATGGGCACGGAGCTGAACCACTGGGAGAAGCGCTTGCTCGAGAATGAAGCAATGACTGGTTCCCACACCCAGAACAGAGTCCTGTCTCGGATCACTCTGGCGTTAATGGAGGACACTGGCTGGTACAAAGCCAATTACAGCATGGCTGAGAAACTCGACTGGGGCCGAGGACTGGGCTGTGAATTTGTCAGGAAGAGCTGTAAATTCTGGATTGATCAGCACAGGCAAAGGAGGCAGGTGCCGAGCCCGTACTGTGACACACTCAGAAGTAACCCGCTGCAGCTGACCTGCAGACAGGACCAGAGAGCCGTCGCTGTGTGTAACCTGCAGAGGTTTCCTAACCCCTTACCACCCGAGTACCAG
Peptide sequence:
MELENQGGMGTELNHWEKRLLENEAMTGSHTQNRVLSRITLALMEDTGWYKANYSMAEKLDWGRGLGCEFVRKSCKFWIDQHRQRRQVPSPYCDTLRSNPLQLTCRQDQRAVAVCNLQRFPNPLPPEYQGFSAGLFAFYHDQDGNPLTSRSADGLPPFNYSLGLYQWSDKVVRKVERLWNVRDNKIVRHTVYLLVTPRVVEEARKHFNCPVLEGMELENQGGMGTELNHWEKRLLENEAMTGSHTQNRVLSRITLALMEDTGWYKANYSMAEKLDWGRGLGCEFVRKSCKFWIDQHRQRRQVPSPYCDTLRSNPLQLTCRQDQRAVAVCNLQRFPNPLPPEYQ
IRESfinder result
IRESfinder score
0.468208364
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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