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mmu_circKmt2c_426
Basic information of circular RNA
PanCircBase ID:
mmu_circKmt2c_426
mm39_Chr. Position ID:
chr5|25614131|25648906|-
Gene name:
Kmt2c
Transcript:
ENSMUST00000045291.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,5751,34686
Genomic length:
34775
Exon/intron sizes in nt:
198,139,89
Flanking exon/introns:
chr5:25610517-25614131|chr5:25648906-25703387
Splice length:
426
Other database IDs:
circAtlas: mmu-Kmt2c_0014
circAtlas: hsa-KMT2C_0015, CIRCpedia: HSA_CIRCpedia_176539
Human Ortholog IDs:
Mature spliced Sequence:
GCCTCGAAGTAGAGGAAAATCTACAGTGGAAGATGAGGACAGCATGGATGGACTGGAGACGACGGAAACAGAAAATATTGTGGAGACAGAAATCAAAGAACAATCTGTGGAAGAGGATGCTGAAACAGAAGTGGATAGCAGCAAACAGCCAGTCTCAGCTCTTCAGCGGTCTGTGTCTGAGGAATCTGCAAACTCCCTGGTCTCTGTTGGCGTAGAAGCCAAAATCAGTGAACAGCTCTGCGCTTTTTGTTATTGTGGAGAGAAAAGTTCCTTAGGACAAGGAGACTTGAAACAATTCAGAGTAACACCTGGACTTACCTTACCTTGGAAAGATCAACCTTCTAACAAGGACATTGATGACAACAGTAGTGGGACCTGTGAGAAAATACAGAACTACGCTCCACGAAAACAAAGAGGACAGAGAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACAACAGTAGTGGGACCTG
59.31
CTGTTTCCGTCGTCTCCAGT
59.69
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACAACAGTAGTGGGACCTG
59.31
TCTGTTTCCGTCGTCTCCAG
59.4
141
PCR template sequence:
GGAAAGATCAACCTTCTAACAAGGACATTGATGACAACAGTAGTGGGACCTGTGAGAAAATACAGAACTACGCTCCACGAAAACAAAGAGGACAGAGAAAGCCTCGAAGTAGAGGAAAATCTACAGTGGAAGATGAGGACAGCATGGATGGACTGGAGACGACGGAAACAGAAAATATTGTGGAGACAGAAATCAAAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGGACAGAGAAAGCCTCGAAGTAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKMT2C_426_ORF_1
0.9531
0.176758822
0.955026148
807
ORF sequence:
ATGGATGGACTGGAGACGACGGAAACAGAAAATATTGTGGAGACAGAAATCAAAGAACAATCTGTGGAAGAGGATGCTGAAACAGAAGTGGATAGCAGCAAACAGCCAGTCTCAGCTCTTCAGCGGTCTGTGTCTGAGGAATCTGCAAACTCCCTGGTCTCTGTTGGCGTAGAAGCCAAAATCAGTGAACAGCTCTGCGCTTTTTGTTATTGTGGAGAGAAAAGTTCCTTAGGACAAGGAGACTTGAAACAATTCAGAGTAACACCTGGACTTACCTTACCTTGGAAAGATCAACCTTCTAACAAGGACATTGATGACAACAGTAGTGGGACCTGTGAGAAAATACAGAACTACGCTCCACGAAAACAAAGAGGACAGAGAAAGCCTCGAAGTAGAGGAAAATCTACAGTGGAAGATGAGGACAGCATGGATGGACTGGAGACGACGGAAACAGAAAATATTGTGGAGACAGAAATCAAAGAACAATCTGTGGAAGAGGATGCTGAAACAGAAGTGGATAGCAGCAAACAGCCAGTCTCAGCTCTTCAGCGGTCTGTGTCTGAGGAATCTGCAAACTCCCTGGTCTCTGTTGGCGTAGAAGCCAAAATCAGTGAACAGCTCTGCGCTTTTTGTTATTGTGGAGAGAAAAGTTCCTTAGGACAAGGAGACTTGAAACAATTCAGAGTAACACCTGGACTTACCTTACCTTGGAAAGATCAACCTTCTAACAAGGACATTGATGACAACAGTAGTGGGACCTGTGAGAAAATACAGAACTACGCTCCACGAAAACAAAGAGGACAGAGA
Peptide sequence:
MDGLETTETENIVETEIKEQSVEEDAETEVDSSKQPVSALQRSVSEESANSLVSVGVEAKISEQLCAFCYCGEKSSLGQGDLKQFRVTPGLTLPWKDQPSNKDIDDNSSGTCEKIQNYAPRKQRGQRKPRSRGKSTVEDEDSMDGLETTETENIVETEIKEQSVEEDAETEVDSSKQPVSALQRSVSEESANSLVSVGVEAKISEQLCAFCYCGEKSSLGQGDLKQFRVTPGLTLPWKDQPSNKDIDDNSSGTCEKIQNYAPRKQRGQR
IRESfinder result
IRESfinder score
0.58591118
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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