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mmu_circPomt1_428
Basic information of circular RNA
PanCircBase ID:
mmu_circPomt1_428
mm39_Chr. Position ID:
chr2|32132904|32134401|+
Gene name:
Pomt1
Transcript:
ENSMUST00000036473.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,7,8,9
Exon/intron offsets:
0,572,726,1341
Genomic length:
1497
Exon/intron sizes in nt:
1,12,66,94,156
Flanking exon/introns:
chr2:32131811-32132904|chr2:32134401-32135558
Splice length:
428
Other database IDs:
CIRCpedia: MMU_CIRCpedia_227420, circAtlas: mmu-Pomt1_0001
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_63257
Human Ortholog IDs:
Mature spliced Sequence:
AGAACGCCCTGATCACTCAGTCCAGGCTCATGCTGTTGGAGTCCATACTGATATTTTTTAACCTGTTGGCTGTGTTGTCCTATCTGAAGTTCTTCAACTCCCAGACACACAGCCCTTTCTCAGTGCACTGGTGGCTGTGGCTACTGCTGACCGGGGTCTCTTGTTCCTGTGCAGTTGGGATCAAATACATGGGGATTTTCACCTACCTGCTTGTGCTCGGCATTGCAGCTGTCCACGCGTGGAATCTGATCGGAGACCAGACCTTGTCAAATATGCGCGTGCTCAGTCACTTGCTCGCCAGAATCGTGGCTCTGCTGGTCGTCCCAGTCTTCCTGTACTTACTCTTCTTCTATGTCCACCTGATGCTGCTCTACCGCTCTGGGCCCCATGACCAAATCATGTCCAGTGCCTTCCAGGCCAGCTTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGTCCACCTGATGCTGCTC
60.11
AGGACAACACAGCCAACAGG
60.47
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCACCTGATGCTGCTCTACC
60.18
AGGACAACACAGCCAACAGG
60.47
154
PCR template sequence:
CTTCCTGTACTTACTCTTCTTCTATGTCCACCTGATGCTGCTCTACCGCTCTGGGCCCCATGACCAAATCATGTCCAGTGCCTTCCAGGCCAGCTTGGAGAGAACGCCCTGATCACTCAGTCCAGGCTCATGCTGTTGGAGTCCATACTGATATTTTTTAACCTGTTGGCTGTGTTGTCCTATCTGAAGTTCTTCAACTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-320-3p(1), mmu-miR-130b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCCAGCTTGGAGAGAACGCCCTGAT
siRNA sets
CGTTCTCTCCAAGCTGGCC, GCGTTCTCTCCAAGCTGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPOMT1_428_ORF_1
1.2739
0.179894974
0.691538477
411
ORF sequence:
ATGCTGTTGGAGTCCATACTGATATTTTTTAACCTGTTGGCTGTGTTGTCCTATCTGAAGTTCTTCAACTCCCAGACACACAGCCCTTTCTCAGTGCACTGGTGGCTGTGGCTACTGCTGACCGGGGTCTCTTGTTCCTGTGCAGTTGGGATCAAATACATGGGGATTTTCACCTACCTGCTTGTGCTCGGCATTGCAGCTGTCCACGCGTGGAATCTGATCGGAGACCAGACCTTGTCAAATATGCGCGTGCTCAGTCACTTGCTCGCCAGAATCGTGGCTCTGCTGGTCGTCCCAGTCTTCCTGTACTTACTCTTCTTCTATGTCCACCTGATGCTGCTCTACCGCTCTGGGCCCCATGACCAAATCATGTCCAGTGCCTTCCAGGCCAGCTTGGAGAGAACGCCCTGA
Peptide sequence:
MLLESILIFFNLLAVLSYLKFFNSQTHSPFSVHWWLWLLLTGVSCSCAVGIKYMGIFTYLLVLGIAAVHAWNLIGDQTLSNMRVLSHLLARIVALLVVPVFLYLLFFYVHLMLLYRSGPHDQIMSSAFQASLERTP
IRESfinder result
IRESfinder score
0.592771878
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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