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mmu_circKmt2c_387_2
Basic information of circular RNA
PanCircBase ID:
mmu_circKmt2c_387_2
mm39_Chr. Position ID:
chr5|25534020|25535898|-
Gene name:
Kmt2c
Transcript:
ENSMUST00000045291.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
31,30,29,28
Exon/intron offsets:
0,218,424,1773
Genomic length:
1878
Exon/intron sizes in nt:
12,03,31,29,105
Flanking exon/introns:
chr5:25529219-25534020|chr5:25535898-25543410
Splice length:
387
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTACTGCTGATGACCCATTAGCTGATATTTCTGAAGTCTTAAACACAGATGATGACATTCTTGGAATAATCTCAGATGATCTTGCAAAATCAGTTGATCATTCAGATATCGGCCCCACTACTGCTGATGCCTCCTCATTGCCTCAGCCAGGTGTCAGTCAGAGTTCACGGCCATTAACTGAAGAGCAGCTAGATGGGATCCTCAGTCCTGAGCTAGACAAAATGGTCACAGATGGAGCAATTCTTGGAAAGTTATATAAAATTCCAGAGCTTGGAGGAAAGGATGTTGAAGACTTGTTTACTGCTGTACTTAGCCCTGCTACCACTCAGCCAGCTCCATTACCACAGCCTCCCCCTCCACCACAGCTATTGCCAATGCACAATCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGCTGTACTTAGCCCTGC
59.75
TCCAAGAATGTCATCATCTGTGT
57.83
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCTGTACTTAGCCCTGCT
59.46
TCCAAGAATGTCATCATCTGTGT
57.83
152
PCR template sequence:
GAAGACTTGTTTACTGCTGTACTTAGCCCTGCTACCACTCAGCCAGCTCCATTACCACAGCCTCCCCCTCCACCACAGCTATTGCCAATGCACAATCAGGGTACTGCTGATGACCCATTAGCTGATATTTCTGAAGTCTTAAACACAGATGATGACATTCTTGGAATAATCTCAGATGATCTTGCAAAATCAGTTGATCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-30e-5p(1), mmu-miR-33-5p(1), mmu-miR-30a-5p(1), mmu-miR-182-5p(1), mmu-miR-499-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGCACAATCAGGGTACTGCTGATGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKMT2C_387_2_ORF_1
1.1299
0.084696246
0.763093984
552
ORF sequence:
ATGGTCACAGATGGAGCAATTCTTGGAAAGTTATATAAAATTCCAGAGCTTGGAGGAAAGGATGTTGAAGACTTGTTTACTGCTGTACTTAGCCCTGCTACCACTCAGCCAGCTCCATTACCACAGCCTCCCCCTCCACCACAGCTATTGCCAATGCACAATCAGGGTACTGCTGATGACCCATTAGCTGATATTTCTGAAGTCTTAAACACAGATGATGACATTCTTGGAATAATCTCAGATGATCTTGCAAAATCAGTTGATCATTCAGATATCGGCCCCACTACTGCTGATGCCTCCTCATTGCCTCAGCCAGGTGTCAGTCAGAGTTCACGGCCATTAACTGAAGAGCAGCTAGATGGGATCCTCAGTCCTGAGCTAGACAAAATGGTCACAGATGGAGCAATTCTTGGAAAGTTATATAAAATTCCAGAGCTTGGAGGAAAGGATGTTGAAGACTTGTTTACTGCTGTACTTAGCCCTGCTACCACTCAGCCAGCTCCATTACCACAGCCTCCCCCTCCACCACAGCTATTGCCAATGCACAATCAG
Peptide sequence:
MVTDGAILGKLYKIPELGGKDVEDLFTAVLSPATTQPAPLPQPPPPPQLLPMHNQGTADDPLADISEVLNTDDDILGIISDDLAKSVDHSDIGPTTADASSLPQPGVSQSSRPLTEEQLDGILSPELDKMVTDGAILGKLYKIPELGGKDVEDLFTAVLSPATTQPAPLPQPPPPPQLLPMHNQ
IRESfinder result
IRESfinder score
0.507691764
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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