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mmu_circMastl_474
Basic information of circular RNA
PanCircBase ID:
mmu_circMastl_474
mm39_Chr. Position ID:
chr2|23030510|23041137|-
Gene name:
Mastl
Transcript:
ENSMUST00000028119.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,4865,5543,10489
Genomic length:
10627
Exon/intron sizes in nt:
10,78,91,40,138
Flanking exon/introns:
chr2:23030067-23030510|chr2:23041137-23045690
Splice length:
474
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTGTCAAAAAGGCAGACATGATCAATAAAAATATGACTCATCAGGTACAAGCTGAGAGAGATGCCCTGGCACTGAGCAAAAGCCCTTTTGTTGTGCATCTCTATTACTCACTGCAGTCAGCAAGCAACATCTACTTGATAATGGAGTATCTTATTGGTGGAGATGTCAAGTCTCTCCTACATATATATGGTTATTTTGATGAAGAGATGGCTATAAAATATATTTCTGAAGTAGCATTGGCTTTAGACTACCTGCACAGACATGGAATCATCCATAGGGATTTGAAACCGGACAATATGCTTATTTCCAATGAGGGTCATATTAAACTGACAGATTTTGGCCTTTCCAAAGTTACTTTGAATAGAGACATCAATATGATGGATATTCTCACAACACCATCAATGTCTAAACCTAAGCAAGATTATTCAAGAACTCCAGGACAAGTCTTATCTCTCATCAGTTCTTTGGGATTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCACAACACCATCAATGTCT
57.64
GGGCATCTCTCTCAGCTTGT
59.46
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCACAACACCATCAATGTCT
57.64
AGGGCATCTCTCTCAGCTTG
59.17
156
PCR template sequence:
TATGATGGATATTCTCACAACACCATCAATGTCTAAACCTAAGCAAGATTATTCAAGAACTCCAGGACAAGTCTTATCTCTCATCAGTTCTTTGGGATTTGTTGTCAAAAAGGCAGACATGATCAATAAAAATATGACTCATCAGGTACAAGCTGAGAGAGATGCCCTGGCACTGAGCAAAAGCCCTTTTGTTGTGCATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-223-3p(1), mmu-miR-196a-5p(1), mmu-miR-185-5p(1), mmu-miR-676-3p(1), mmu-miR-499-5p(1), mmu-miR-325-3p(1), mmu-miR-3065-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTTTGGGATTTGTTGTCAAAAAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMASTL_474_ORF_1
0.9605
0.017719748
0.964584654
930
ORF sequence:
ATGATCAATAAAAATATGACTCATCAGGTACAAGCTGAGAGAGATGCCCTGGCACTGAGCAAAAGCCCTTTTGTTGTGCATCTCTATTACTCACTGCAGTCAGCAAGCAACATCTACTTGATAATGGAGTATCTTATTGGTGGAGATGTCAAGTCTCTCCTACATATATATGGTTATTTTGATGAAGAGATGGCTATAAAATATATTTCTGAAGTAGCATTGGCTTTAGACTACCTGCACAGACATGGAATCATCCATAGGGATTTGAAACCGGACAATATGCTTATTTCCAATGAGGGTCATATTAAACTGACAGATTTTGGCCTTTCCAAAGTTACTTTGAATAGAGACATCAATATGATGGATATTCTCACAACACCATCAATGTCTAAACCTAAGCAAGATTATTCAAGAACTCCAGGACAAGTCTTATCTCTCATCAGTTCTTTGGGATTTGTTGTCAAAAAGGCAGACATGATCAATAAAAATATGACTCATCAGGTACAAGCTGAGAGAGATGCCCTGGCACTGAGCAAAAGCCCTTTTGTTGTGCATCTCTATTACTCACTGCAGTCAGCAAGCAACATCTACTTGATAATGGAGTATCTTATTGGTGGAGATGTCAAGTCTCTCCTACATATATATGGTTATTTTGATGAAGAGATGGCTATAAAATATATTTCTGAAGTAGCATTGGCTTTAGACTACCTGCACAGACATGGAATCATCCATAGGGATTTGAAACCGGACAATATGCTTATTTCCAATGAGGGTCATATTAAACTGACAGATTTTGGCCTTTCCAAAGTTACTTTGAATAGAGACATCAATATGATGGATATTCTCACAACACCATCAATGTCTAAACCTAAGCAAGATTATTCAAGAACTCCAGGACAAGTCTTATCTCTCATCAGTTCTTTGGGATTT
Peptide sequence:
MINKNMTHQVQAERDALALSKSPFVVHLYYSLQSASNIYLIMEYLIGGDVKSLLHIYGYFDEEMAIKYISEVALALDYLHRHGIIHRDLKPDNMLISNEGHIKLTDFGLSKVTLNRDINMMDILTTPSMSKPKQDYSRTPGQVLSLISSLGFVVKKADMINKNMTHQVQAERDALALSKSPFVVHLYYSLQSASNIYLIMEYLIGGDVKSLLHIYGYFDEEMAIKYISEVALALDYLHRHGIIHRDLKPDNMLISNEGHIKLTDFGLSKVTLNRDINMMDILTTPSMSKPKQDYSRTPGQVLSLISSLGF
IRESfinder result
IRESfinder score
0.662087307
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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