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mmu_circMms19_1596
Basic information of circular RNA
PanCircBase ID:
mmu_circMms19_1596
mm39_Chr. Position ID:
chr19|41933767|41935542|-
Gene name:
Mms19
Transcript:
ENSMUST00000167927.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
27,26,25
Exon/intron offsets:
0,130,404
Genomic length:
1775
Exon/intron sizes in nt:
60,16,51,371
Flanking exon/introns:
chr19:41933196-41933767|chr19:41935542-41936128
Splice length:
1596
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTCATGGGCCTCCTCAGTGATCCAGAACTTGGCTGTGCAGCAGCTGATGGCTTCTCTCTGCTCATGTCTGACTGCACTGATGTGTTGACTCGTGCCGGCCATGCTGATGTTCGGATCATGTTCCGCCAGCGGTTCTTCACAGACAATGTGCCTGCTTTGGTCCAAGGTTTCCATGCCGCTCCCCAAGGTGAAAGCTGATCTCCAAATATATGGACCTCTACTCTTGGCCATAAGCCTCTACAGTAATTTAGGACCCAGATGCTATATTGTGGTCTATGCCTACAGAGCTGTACTAAATCCCACTTTTCCCTGATGAGTACATCTGAGCTATTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTGAGAGAGAAAGAGAGAGAGAGACAGACACAGACATGTTTGTGTGGGAGCCAAAAGTCAACATCTAATACTTTAACAGAGCCACTGTGTGGTTGCTTGGAGTTGAACTCAGGACCTCTGGAAGAGCAGTCGATGCTCTTAACCACTGAACCATCTCTCCAGCCCTATTACATTTTTTATGTATTAATTGCTTGCCACAATATGTCTGTGGAAGTCTCTCCTTCCACCATGTAGCTTCCAATGATTGAATGCTAATCAGGCTTAACAGCAGGTGCCTTTACCCACTGACCTGCTGATCCAGTTTGATGGCCTGATAGCATGTTCTTCCATTGTTCTCCATGTGTATGTGTGTGTGGTATGTGTGTACATGCACAAAGATATGTATACCTGGAGGTCAAAGAACAGCTAACCAAGTTAGTTGTACCAAATGGGTTCCAGGGATTGAGCTAGGTCATAAATGCTTTACCTAAGGAGTTATCTTGCCAGTGCTTCTACTTCATTTTTTTGAAACAGGATTTCCCAGGGAACCTCAAACGTGCTGCTTTGGCAAGATCAGCTAGCCAGCAAGCCAGGTGCTCTGTCTCCACTCGGCTGCACTGCAGCACTTATAGTACCTATGGGTCAATGGGACTAAAACTCGTGTTTCTCAGAAAGTACTTTCCCACCTGACCTATCTTCCCTAGCCCCAACCCTTCTCTTAGGCAGATCTCTCACTGTCTAACTTAGACTGGCTTTGAAGCCCCTTGCCTCAGCCTCCTGAATGCTGAATAGGCTTCAGTCATCACATCTTACTATGTAAGCTGATGTACCTACTCATTTGAGTTAGAGATTGAATTCTCAAACTGAATGTCTAACCCCAGTTTGTCTCCCACACATTTTCTTTTTTTATTTCTATCCCCAGATGTGAAGCCAAACTATCTGAAGGGTCTGTCTCACGTACTCAACAGGCTGCCCAAGCCTGTGCTTTTACCAGAGCTGCCCACACTTCTTTCCTTGCTGCTGGAAGCATTATCCTGCCCTGACTCTGTGGTCCAGCTTTCCACTCTGAGCTGTCTCCAACCCCTACTACTGGAAGCACCTCAAATCATGAGTCTTCATGTTGACACTCTGGTTACAAAATTCCTGAACCTCAGCTCCAGTTACTCAATGGCTGTCCGGATTGCTGCTCTGCAGTGTATGCACGCTCTCACTCGCCTCCCCACTTCTGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGAACCTCAGCTCCAGT
60.18
AGCAGAGAGAAGCCATCAGC
59.82
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTGAACCTCAGCTCCAGT
60.18
AGTGCAGTCAGACATGAGCA
59.32
167
PCR template sequence:
GGTTACAAAATTCCTGAACCTCAGCTCCAGTTACTCAATGGCTGTCCGGATTGCTGCTCTGCAGTGTATGCACGCTCTCACTCGCCTCCCCACTTCTGTGCTCATGGGCCTCCTCAGTGATCCAGAACTTGGCTGTGCAGCAGCTGATGGCTTCTCTCTGCTCATGTCTGACTGCACTGATGTGTTGACTCGTGCCGGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
29
Interacting miRNAs (#binding sites)
mmu-miR-466d-3p(4), mmu-miR-466b-3p(4), mmu-miR-16-5p(2), mmu-miR-322-5p(2), mmu-miR-124-3p(1), mmu-miR-155-5p(1), mmu-miR-15a-5p(1), mmu-miR-106a-5p(1), mmu-miR-17-5p(1), mmu-miR-7b-5p(1), mmu-miR-31-5p(1), mmu-miR-15b-5p(1), mmu-miR-106b-5p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-7a-5p(1), mmu-miR-320-3p(1), mmu-miR-214-3p(1), mmu-miR-433-3p(1), mmu-miR-467b-5p(1), mmu-miR-362-5p(1), mmu-miR-297a-5p(1), mmu-miR-705(1), mmu-miR-29b-2-5p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-188-3p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCCACTTCTGTGCTCATGGGCCTCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMMS19_1596_ORF_1
0.9461
0.099357053
0.710186642
561
ORF sequence:
ATGTCTAACCCCAGTTTGTCTCCCACACATTTTCTTTTTTTATTTCTATCCCCAGATGTGAAGCCAAACTATCTGAAGGGTCTGTCTCACGTACTCAACAGGCTGCCCAAGCCTGTGCTTTTACCAGAGCTGCCCACACTTCTTTCCTTGCTGCTGGAAGCATTATCCTGCCCTGACTCTGTGGTCCAGCTTTCCACTCTGAGCTGTCTCCAACCCCTACTACTGGAAGCACCTCAAATCATGAGTCTTCATGTTGACACTCTGGTTACAAAATTCCTGAACCTCAGCTCCAGTTACTCAATGGCTGTCCGGATTGCTGCTCTGCAGTGTATGCACGCTCTCACTCGCCTCCCCACTTCTGTGCTCATGGGCCTCCTCAGTGATCCAGAACTTGGCTGTGCAGCAGCTGATGGCTTCTCTCTGCTCATGTCTGACTGCACTGATGTGTTGACTCGTGCCGGCCATGCTGATGTTCGGATCATGTTCCGCCAGCGGTTCTTCACAGACAATGTGCCTGCTTTGGTCCAAGGTTTCCATGCCGCTCCCCAAGGTGAAAGCTGA
Peptide sequence:
MSNPSLSPTHFLFLFLSPDVKPNYLKGLSHVLNRLPKPVLLPELPTLLSLLLEALSCPDSVVQLSTLSCLQPLLLEAPQIMSLHVDTLVTKFLNLSSSYSMAVRIAALQCMHALTRLPTSVLMGLLSDPELGCAAADGFSLLMSDCTDVLTRAGHADVRIMFRQRFFTDNVPALVQGFHAAPQGES
IRESfinder result
IRESfinder score
0.752684056
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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