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mmu_ciKmt2c_774
Basic information of circular RNA
PanCircBase ID:
mmu_ciKmt2c_774
mm39_Chr. Position ID:
chr5|25579565|25580339|-
Gene name:
Kmt2c
Transcript:
ENSMUST00000173174.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
12
Exon/intron offsets:
0
Genomic length:
774
Exon/intron sizes in nt:
774
Flanking exon/introns:
chr5:25579562-25580339
Splice length:
774
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGACTATAGTTTTGAAGAAAATAGGTAGTATGTAAATATCTTCTTGGAAATTGTTTAAAGAGGAGCATTGTAAGACCTGGAGATGTGACTCAGTAGTACAGAGGGGATGCTTAGGAAAAAAATAATCACCTTTGGCATATCCATATTCGGTTGTAATCTAATCTTGTTAATAAATATGAACTTTGTTTAGGGAACAAGTAATTTTCATTAAAAAGTAATCTATTATCTTCTTATAATTGTGAATAAATTTATTATAGATTAGGTATTTCTTGCAAAGATTTTGGAAATTTTATTATATTAAGTTATCTCAGTAGTGCTTTTTGAGGGTATTTTAAAGATGTTTCAACTAAGTTTTTACAATATTGATAATAGCTTTACTGAATTTGTATAATTAGTAAACTTTTATATTTGAGGAAATTGCTTATTAAATTATGAGCTGTTCTAAATTTTTTCTTTTGTAGATGAACTTTTGTATTAAATTACATAATTTGAATACATAACGTCTTGGAGTTTTTTAAGATGTTTAATGTCACATTTTACAACTCATGGAAATTTATACATTATACAGATTTAACTGGATAAAATAAGTTATATCAGATTCCTAATTGTATCTTACTAAATTGTATCTTACTAATATAATAAGTATGTTTGTGCTCGTTTTGGAAATTGGCATTTTATAGTAAAACTCATTCAGTTACTGTAGAGACAGTGGTATTAGAGAAATGTTGACTTCTTACTTAAAGGTTCCTGTAATATGTTGTTTATTGCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACTTCTTACTTAAAGGTTCCTGT
57.87
ACTGAGTCACATCTCCAGGTC
58.82
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACTTCTTACTTAAAGGTTCCTGT
57.87
ACTGAGTCACATCTCCAGGTCT
60.23
142
PCR template sequence:
ATTTTATAGTAAAACTCATTCAGTTACTGTAGAGACAGTGGTATTAGAGAAATGTTGACTTCTTACTTAAAGGTTCCTGTAATATGTTGTTTATTGCTAGGTAAGACTATAGTTTTGAAGAAAATAGGTAGTATGTAAATATCTTCTTGGAAATTGTTTAAAGAGGAGCATTGTAAGACCTGGAGATGTGACTCAGTAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-324-5p(1), mmu-miR-23a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTTTATTGCTAGGTAAGACTATAGT
siRNA sets
ACTATAGTCTTACCTAGCA, ATAGTCTTACCTAGCAATA, TATAGTCTTACCTAGCAAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIKMT2C_774_ORF_1
0.7135
-0.638760555
0.002635053
87
ORF sequence:
ATGTTGACTTCTTACTTAAAGGTTCCTGTAATATGTTGTTTATTGCTAGGTAAGACTATAGTTTTGAAGAAAATAGGTAGTATGTAA
Peptide sequence:
MLTSYLKVPVICCLLLGKTIVLKKIGSM
IRESfinder result
IRESfinder score
0.926604616
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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