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mmu_circMsmo1_561
Basic information of circular RNA
PanCircBase ID:
mmu_circMsmo1_561
mm39_Chr. Position ID:
chr8|65175497|65180942|-
Gene name:
Msmo1
Transcript:
ENSMUST00000034015.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,1124,5160
Genomic length:
5445
Exon/intron sizes in nt:
12,71,49,285
Flanking exon/introns:
chr8:65173530-65175497|chr8:65180942-65186541
Splice length:
561
Other database IDs:
CIRCpedia: MMU_CIRCpedia_25911, circAtlas: mmu-Msmo1_0003
circBase: hsa_circ_0125714, circAtlas: hsa-MSMO1_0001, CIRCpedia: HSA_CIRCpedia_124188
Human Ortholog IDs:
Mature spliced Sequence:
GAATAAAAGGTCCCTCGCAGAGATTTGAAAATGGCCACAAACAAAAGTGTTGGCGTGTTCAGCTCTGCATCCCTGGCTGTGGAGTATGTGGACTCACTGTTGCCGGAGAATCCTCTGCAGGAGCCCTTTAAGAATGCTTGGGTCTACATGTTGGACAACTATACAAAGTTCCAGATCGCAACCTGGGGCTCCCTGATAGTTCACGAAGCCATCTATTTCTTGTTCTCTTTACCTGGATTCCTATTCCAGTTTATACCTTACATGAGAAAGTACAAGATTCAAAAGGATAAACCAGAAACCTTCGAAGGCCAGTGGAAGTGTTTGAAAAAAATTCTATTTAATCATTTTTTTATCCAGTTGCCTCTGATTTGTGGAACATACTATTTTACAGAGTTTTTCAATATTCCTTATGATTGGGAAAGAATGCCAAGATGGTACTTAACTTTGGCAAGGTGTTTGGGCTGTGCAGTCATTGAGGACACCTGGCATTATTTCCTGCACAGACTCCTTCACCACAAGAGAATTTATAAATACATTCATAAAGTCCATCACGAGTTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCATTGAGGACACCTGGCA
59.96
AGGGATGCAGAGCTGAACAC
60.04
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCATTGAGGACACCTGGCA
59.96
CAGGGATGCAGAGCTGAACA
60.04
168
PCR template sequence:
CTGTGCAGTCATTGAGGACACCTGGCATTATTTCCTGCACAGACTCCTTCACCACAAGAGAATTTATAAATACATTCATAAAGTCCATCACGAGTTTCAGGAATAAAAGGTCCCTCGCAGAGATTTGAAAATGGCCACAAACAAAAGTGTTGGCGTGTTCAGCTCTGCATCCCTGGCTGTGGAGTATGTGGACTCACTGT
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-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCACGAGTTTCAGGAATAAAAGGTCC
siRNA sets
TTTTATTCCTGAAACTCGT, CTTTTATTCCTGAAACTCG, TTATTCCTGAAACTCGTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMSMO1_561_ORF_1
0.8367
-0.010457653
0.529722506
537
ORF sequence:
ATGGCCACAAACAAAAGTGTTGGCGTGTTCAGCTCTGCATCCCTGGCTGTGGAGTATGTGGACTCACTGTTGCCGGAGAATCCTCTGCAGGAGCCCTTTAAGAATGCTTGGGTCTACATGTTGGACAACTATACAAAGTTCCAGATCGCAACCTGGGGCTCCCTGATAGTTCACGAAGCCATCTATTTCTTGTTCTCTTTACCTGGATTCCTATTCCAGTTTATACCTTACATGAGAAAGTACAAGATTCAAAAGGATAAACCAGAAACCTTCGAAGGCCAGTGGAAGTGTTTGAAAAAAATTCTATTTAATCATTTTTTTATCCAGTTGCCTCTGATTTGTGGAACATACTATTTTACAGAGTTTTTCAATATTCCTTATGATTGGGAAAGAATGCCAAGATGGTACTTAACTTTGGCAAGGTGTTTGGGCTGTGCAGTCATTGAGGACACCTGGCATTATTTCCTGCACAGACTCCTTCACCACAAGAGAATTTATAAATACATTCATAAAGTCCATCACGAGTTTCAGGAATAA
Peptide sequence:
MATNKSVGVFSSASLAVEYVDSLLPENPLQEPFKNAWVYMLDNYTKFQIATWGSLIVHEAIYFLFSLPGFLFQFIPYMRKYKIQKDKPETFEGQWKCLKKILFNHFFIQLPLICGTYYFTEFFNIPYDWERMPRWYLTLARCLGCAVIEDTWHYFLHRLLHHKRIYKYIHKVHHEFQE
IRESfinder result
IRESfinder score
0.854247617
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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