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mmu_circKmt2e_485
Basic information of circular RNA
PanCircBase ID:
mmu_circKmt2e_485
mm39_Chr. Position ID:
chr5|23668013|23676804|+
Gene name:
Kmt2e
Transcript:
ENSMUST00000196889.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,1687,4092,8732
Genomic length:
8791
Exon/intron sizes in nt:
115,230,81,59
Flanking exon/introns:
chr5:23655334-23668013|chr5:23676804-23678478
Splice length:
485
Other database IDs:
circAtlas: mmu-Kmt2e_0036
Human Ortholog IDs:
Mature spliced Sequence:
ACCGGAATCCGTAGAAGCTAGCCCTGTGGTAGTTGAGAAATCCAACAGTTTTCCCCACCAGTTATACACCAGCAGCTCCCACCACTCACACAGCTACATCGGTCTGCCCTATGCGGACCATAATTATGGTGCTCGTCCTCCTCCAACACCTCCAGCATCCCCTCCTCCATCAGGTCTCATTAGCAAAAACGAAGTAGGCATATTTACCACTCCTAATTTTGATGAAACTTCCAGTGCTACTACAATCAGCACATCTGAAGATGGAAGTTACGGTACTGATGTAACCAGGTGCATATGTGGTTTTACACATGATGACGGATACATGATCTGTTGTGACAAATGCAGTGTTTGGCAACATATTGACTGCATGGGGATTGACAGGCAGCATATTCCTGATACATACCTATGTGAACGTTGTCAGCCCAGGAGTTTGGATAAAGAGAGGGCAGTGCTACTGCAACGCCGGAAAAGAGAAAATATGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTCAGCCCAGGAGTTTGG
60.18
GTAGCTGTGTGAGTGGTGGG
60.32
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGTGAACGTTGTCAGCCCA
60.18
GTAGCTGTGTGAGTGGTGGG
60.32
177
PCR template sequence:
CATATTCCTGATACATACCTATGTGAACGTTGTCAGCCCAGGAGTTTGGATAAAGAGAGGGCAGTGCTACTGCAACGCCGGAAAAGAGAAAATATGTCAGACCGGAATCCGTAGAAGCTAGCCCTGTGGTAGTTGAGAAATCCAACAGTTTTCCCCACCAGTTATACACCAGCAGCTCCCACCACTCACACAGCTACATC
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-200a-3p(1), mmu-miR-138-5p(1), mmu-miR-511-3p(1), mmu-miR-705(1)
siRNAs for circular RNA silencing
Junction sequence
GAAAATATGTCAGACCGGAATCCGTA
siRNA sets
ATTCCGGTCTGACATATTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKMT2E_485_ORF_1
0.8743
-0.020860056
0.079592135
177
ORF sequence:
ATGATCTGTTGTGACAAATGCAGTGTTTGGCAACATATTGACTGCATGGGGATTGACAGGCAGCATATTCCTGATACATACCTATGTGAACGTTGTCAGCCCAGGAGTTTGGATAAAGAGAGGGCAGTGCTACTGCAACGCCGGAAAAGAGAAAATATGTCAGACCGGAATCCGTAG
Peptide sequence:
MICCDKCSVWQHIDCMGIDRQHIPDTYLCERCQPRSLDKERAVLLQRRKRENMSDRNP
IRESfinder result
IRESfinder score
0.461542757
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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