top of page
mmu_ciKmt2c_3233
Basic information of circular RNA
PanCircBase ID:
mmu_ciKmt2c_3233
mm39_Chr. Position ID:
chr5|25500634|25503867|-
Gene name:
Kmt2c
Transcript:
ENSMUST00000174734.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
3233
Exon/intron sizes in nt:
3233
Flanking exon/introns:
chr5:25500608-25503867
Splice length:
3233
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTGTCAGTTGTGAAAACAGCTGTATCTGTTTTTAAGCTATCGCAGTAGATTAGTATCAACAAATTTCTAATTTTAAACTTTCTTGTGCAAAGAATCATGGTTTTTTGTTTTGTTTTGTTTTTATTTCTGTAGAACCCTGTTTTTACTTATATTTACAAAATATATGAGTGACTCATTTGCTTGTTATATAAAGTAAACATGAATCATTATGTGTGCCTTTCAGCTGGTTATCATAACCAAGTTGGACTAACTATAGCAAAGGAAGTATGTGTGAATCTTTATTATAAATAAGTGCATAATTTCTATTAGCCTCTCTAAAATTTAGAAGACAGCTCCTGTACTTGTCTTACTTTCCTTGAGTACTCTCAGGGATGTCTCTTATTGGGAACTTACTGTGTCAGAAAAATAACATGATTTTAGATGTGGATACTATTTCCATCTTTGTAGTTTTCTATGTATCGATATTCTACCCATTTTAAGTGTTAACATTGGATTTTCTTTCCATTTGTATTTATAGACAGTTTTAAATACACACTTTGAATACAGAGTGACCCCCATTTCAGTGAACCTAATTAAGATGTTTCACAACCAGGAGTTTCTCTGCCTTTTGAATAGGTCTGCTTGTTGCTTTGCTCCTTGTCTTTCATAAGTATCAGTGGTTATTAGTGCATTCACACAGCTTCCCTGGGGTGCTGCTCAGTTTGGTTTTATAATTTTTACATTGTAATTGAAGTACAGTAGAGTTTTACTTGTCTAAGTTTGCAATTTTAAGAATAATGAGACTTGTTGTTTTGCAAGTGTTGGCTCTCCTCTCTTCTGTTGTCTCCTGTCGTTCAGTAGAGATTGAGCATTCTCGCAGTTGTTACTTTTGTCTAATTGGCAGTTATGGTCTCTTCTTCCTCTTTAATCTTTGAGAGTCTCGTGCATGCAAACAGTGCATCTTGTGGTTGTGTTTTTCTAGTTGTTACAATATGCTCTCCAGGTCCAGTCCTTGGCTGATGACTCCAGGGTGTTTTGTGTCTGGGAATACTGAATGCCCTCAGCCCTGTGCCCACAGTGCCCTCTGTGCCCCATGTGCTGCAACTCTTTCTTTTCTCCTATCCTTTTCTAATGTCTTTTTCTTTGTGAAACTTAGTTCTGAAATCTTGTAATGAGCTTCCTGAACTTGACCAACCACAGATGTGTGGATGCCCATGCGTTCACCTCTTAGTTGCGGGGGCTTGACTCACATAAGAACTACCATCAGCATGTCCATACTACAATTTGTGTTATTCAAGACTATTTAATGGCACAGGGAAGCAGGCACGTGTCAAGTATAGAAAGCAGAAGCTAAGAGATTAGAATGAGCATGAGGTGTATGCTCTTGATCCTTGTGATTAAAACAACAAACCATTTGAAGCTGTGCATGGTGGTACCTGCCTGTAATCTCAGCACTCAGGAACTTGAGGCAGGAAGATTGCTGCAGGGTCAAGGGCAGTCTGAGCTACAAAGTGAAACTTTTACACAAACTAGTAAACAAAAAATTCAAAATCTTTTGTGATCTTTTATACTCGTCTTTTGAAACATAGCTGGATTTACTTTGTAGAATAATTATAAAAGTTAGAGATACTATCTGTAAAGCGTCTAAAGTGGCTGAGTTATGCAAACTTAACATGCTTGCCTGCTCAGTCTTTCATAAGCCAATTACAAAAGTTGCATGTCTTTAAGGACATCAGCATCCATGGTCCCCGGGTGGTTTGAGAGCATACCAGATTTGTTTGTGCTGCTGTGTTCCTAAATCAGAACGCACTGTTCAGCGAGATTGCCCTGGTGACTCAGTGCTGTAGGCCTGCTGATAGTCATCTGGTGAGCCTGTTAAGACAGACATTGCTGGTTCATTGTGTAGGCTGGACCAGGGAATCTGCATTTCTAATCAGTCCCAGGAGCTGCTGTGTTGCTCTGATACTGCTCTTGGAGAATCAGGGTTCTACCCAGGCAGAGGCAATATAAGCCTACTTCAACTTCCTCCCTTTGTATGAGCTAAGAAGAAAAAGTAGTAGTAATTATTAATAAATGAAGTTATATGAAATTTAAATTTGTTCATGAATTTTAAAAGTTGTATTGGACCATGGCCAACTCATTTATAAAAATTATACAGCTGTTTTTGCAGTACTGTATCAGAACCCATAGTTCACACAGACCACATGGTTCATAGGCTAAAATTATTACCCTGTTTTCCTTTATAATTTGCCACCCATGTGATGTTTTTATAACAATCAGAAAATCTAATTTTCAAAACACTTAAAAGTTAAATGGTTTCACTAAGTTTTTCAATTATACTTGTTCTTAGCAAACCATTAATAATAGTTTTAGAAATAAGAAAGCGTGAAAAATATTCCTGTGTTTTGATATTGGTACTTCTGGACTTAGATAAAACCTTTTTCAAGGCCTGTATTACTCTTACATCTTTGTGACCATGAAAGCAAAAGGAAAGGAAGGGACCTAGAGCAGAGATGGCTTAATGGTTAAGAGAATTAATGATTCTTGCAGAGGGCCTCTCATAGTGGCTTATAACCATTTGTAGCTCCAGTTTGAGAGGATTCAGTGCTCTTTTCTGATTTTCACAGGCACCAGGCATGCATATGGTGTCTATACATTGTATTCACATAGACAAGATATTCAAACACATTAAATAAATAAATCATTTTTAAAAGCAAAGGAAAAATTAATTTGCTATTATCTGTGTACGTAGCCATTACGTTTTTCATTCAAGCATAGATTTTGACACTAGTTTGAGGGGCCAGTATGACGTCTTCGAGCTTTCTAGCTGCTCTTTTCTTACCTCTGGTGCATGAGCTTAAGATGTTCCTGGAACCTGTGAATTAGCTTCACATCTCAGATTGCAACAGGTCTTAGTTCCTATGGGGGGAGGGGAAATAAATTGCCAAAAACACAGCTCAGAAGCTGCTCGTTCATCTGGCATGGTGCTTCCCTGGTCTCAGCTTAGATAGTGAGGAGCTATACTTCATTCTTGTTTCTAGTTCTGCAATCTCCTGGTTGCTGAGACTGGCGCTATTTTTCATATTTTAATATACCTTAATGCAGAGGGAAGAGGGAACAGTTATTTTCAGAAAACAACTTCATTCTGTAACTTCCCCCCTTTAAATTGGGATGCCATGTTAGAAATATGAGTCACAAGTTGGAGCTGGTCTAGCATGAACTAAGAATCAAACATGTGGGAAGTTACTTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCCTTTAAATTGGGATGCC
59.23
TGTTGATACTAATCTACTGCGATAGCT
59.82
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCCTTTAAATTGGGATGCC
59.23
TGTTGATACTAATCTACTGCGATAGC
58.69
160
PCR template sequence:
ACTTCCCCCCTTTAAATTGGGATGCCATGTTAGAAATATGAGTCACAAGTTGGAGCTGGTCTAGCATGAACTAAGAATCAAACATGTGGGAAGTTACTTAGTAAGTGTCAGTTGTGAAAACAGCTGTATCTGTTTTTAAGCTATCGCAGTAGATTAGTATCAACAAATTTCTAATTTTAAACTTTCTTGTGCAAAGAATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
32
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(2), mmu-miR-322-5p(2), mmu-miR-15b-5p(2), mmu-miR-124-3p(1), mmu-miR-16-5p(1), mmu-miR-101a-3p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-335-5p(1), mmu-miR-29c-3p(1), mmu-miR-101b-3p(1), mmu-miR-326-3p(1), mmu-miR-138-5p(1), mmu-miR-214-3p(1), mmu-miR-128-3p(1), mmu-miR-503-5p(1), mmu-miR-125a-5p(1), mmu-miR-22-3p(1), mmu-miR-501-3p(1), mmu-miR-382-5p(1), mmu-miR-340-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-1198-5p(1), mmu-miR-410-3p(1), mmu-miR-452-3p(1), mmu-miR-188-3p(1), mmu-miR-3470b(1), mmu-miR-670-5p(1), mmu-miR-193b-3p(1), mmu-miR-574-5p(1), mmu-miR-7a-1-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGGAAGTTACTTAGTAAGTGTCAGTT
siRNA sets
CACTTACTAAGTAACTTCC, AACTGACACTTACTAAGTA, ACTTACTAAGTAACTTCCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.884982886
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page