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mmu_circKmt5b_669
Basic information of circular RNA
PanCircBase ID:
mmu_circKmt5b_669
mm39_Chr. Position ID:
chr19|3846639|3855053|+
Gene name:
Kmt5b
Transcript:
ENSMUST00000052699.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
5,6,7,8,9,10
Exon/intron offsets:
0,5435,6148,7755,8174,8277
Genomic length:
8414
Exon/intron sizes in nt:
6,91,66,11,01,67,20,130
Flanking exon/introns:
chr19:3843215-3846639|chr19:3855053-3857224
Splice length:
669
Other database IDs:
circAtlas: mmu-Suv420h1_0004
circBase: hsa_circ_0096271, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_128367
Human Ortholog IDs:
Mature spliced Sequence:
CGCCTTTCCTTCGAGGAGCTCGAGGCATATTTCAAAAGCTGACAGTTTTTCTCACAACAATCCTGTGAGATTTCGGCCTATAAAAGGAAGGCAAGAAGAGCTAAAGGAAGTAATTGAACGCTTTAAGAAAGATGAACACTTAGAGAAAGCTTTCAAATGTTTGACTTCTGGGGAATGGGCACGGCATTATTTTCTCAACAAAAACAAAATGCAGGAGAAATTATTCAAGGAACATGTCTTTATTTACTTGCGGATGTTTGCAACTGACAGTGGATTTGAAATACTGCCTTGTAATAGATATTCTTCAGAACAAAATGGAGCCAAGATAGTTGCAACAAAAGAGTGGAAACGAAATGACAAAATAGAATTACTGGTGGGTTGTATTGCCGAACTTTCAGAAATTGAGGAGAACATGCTACTTAGACACGGAGAAAACGACTTCAGTGTCATGTATTCCACAAGGAAAAATTGTGCTCAACTCTGGCTCGGTCCTGCTGCATTTATAAATCATGATTGCAGACCTAACTGTAAGTTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTGTTACTATGGAGATGGCT
56.34
AGGCCGAAATCTCACAGGAT
58.79
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGAGAGATATTGAACCTGGAGA
58.23
AGGCCGAAATCTCACAGGAT
58.79
178
PCR template sequence:
CTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAGCGCCTTTCCTTCGAGGAGCTCGAGGCATATTTCAAAAGCTGACAGTTTTTCTCACAACAATCCTGTGAGATTTCGGCCTATAAAAGGAAGGCAAGAAGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-223-3p(2), mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-30d-5p(1), mmu-miR-214-3p(1), mmu-miR-136-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
ATACTTGTGAAAGCGCCTTTCCTTCG
siRNA sets
AAAGGCGCTTTCACAAGTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKMT5B_669_ORF_1
0.7555
-0.011323498
0.985575317
1128
ORF sequence:
ATGCAGGAGAAATTATTCAAGGAACATGTCTTTATTTACTTGCGGATGTTTGCAACTGACAGTGGATTTGAAATACTGCCTTGTAATAGATATTCTTCAGAACAAAATGGAGCCAAGATAGTTGCAACAAAAGAGTGGAAACGAAATGACAAAATAGAATTACTGGTGGGTTGTATTGCCGAACTTTCAGAAATTGAGGAGAACATGCTACTTAGACACGGAGAAAACGACTTCAGTGTCATGTATTCCACAAGGAAAAATTGTGCTCAACTCTGGCTCGGTCCTGCTGCATTTATAAATCATGATTGCAGACCTAACTGTAAGTTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAAAGCGCCTTTCCTTCGAGGAGCTCGAGGCATATTTCAAAAGCTGACAGTTTTTCTCACAACAATCCTGTGAGATTTCGGCCTATAAAAGGAAGGCAAGAAGAGCTAAAGGAAGTAATTGAACGCTTTAAGAAAGATGAACACTTAGAGAAAGCTTTCAAATGTTTGACTTCTGGGGAATGGGCACGGCATTATTTTCTCAACAAAAACAAAATGCAGGAGAAATTATTCAAGGAACATGTCTTTATTTACTTGCGGATGTTTGCAACTGACAGTGGATTTGAAATACTGCCTTGTAATAGATATTCTTCAGAACAAAATGGAGCCAAGATAGTTGCAACAAAAGAGTGGAAACGAAATGACAAAATAGAATTACTGGTGGGTTGTATTGCCGAACTTTCAGAAATTGAGGAGAACATGCTACTTAGACACGGAGAAAACGACTTCAGTGTCATGTATTCCACAAGGAAAAATTGTGCTCAACTCTGGCTCGGTCCTGCTGCATTTATAAATCATGATTGCAGACCTAACTGTAAGTTTGTGTCAACTGGTCGAGATACAGCATGCGTTAAGGCTCTGAGAGATATTGAACCTGGAGAAGAAATTTCTTGTTACTATGGAGATGGCTTTTTTGGAGAAAATAATGAGTTCTGCGAATGTTATACTTGTGAA
Peptide sequence:
MQEKLFKEHVFIYLRMFATDSGFEILPCNRYSSEQNGAKIVATKEWKRNDKIELLVGCIAELSEIEENMLLRHGENDFSVMYSTRKNCAQLWLGPAAFINHDCRPNCKFVSTGRDTACVKALRDIEPGEEISCYYGDGFFGENNEFCECYTCESAFPSRSSRHISKADSFSHNNPVRFRPIKGRQEELKEVIERFKKDEHLEKAFKCLTSGEWARHYFLNKNKMQEKLFKEHVFIYLRMFATDSGFEILPCNRYSSEQNGAKIVATKEWKRNDKIELLVGCIAELSEIEENMLLRHGENDFSVMYSTRKNCAQLWLGPAAFINHDCRPNCKFVSTGRDTACVKALRDIEPGEEISCYYGDGFFGENNEFCECYTCE
IRESfinder result
IRESfinder score
0.658960418
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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