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mmu_circSugp1_1741
Basic information of circular RNA
PanCircBase ID:
mmu_circSugp1_1741
mm39_Chr. Position ID:
chr8|70501158|70523909|+
Gene name:
Sugp1
Transcript:
ENSMUST00000011450.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,4082,7877,10773,11244,12027,16328,20943,21487,21822,22605
Genomic length:
22751
Exon/intron sizes in nt:
17,21,01,21,91,24,10,10,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr8:70495730-70501158|chr8:70523909-70524171
Splice length:
1741
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAAAGGCCAATCGGTGGTTTGGGATGGCACAACCCAAGTCTGGAAAGATGAATATGAACATCCTCCACCAGGAAGAGCTTATTGCTCAGAAGAAGCGGGAGATTGAGGCCAGAATGGAACAAAAGGCCAGACAGAGTCATGTGCCCAGTCCACAGCCCCCTCATCCTGGAGAAATTGCTGATGCACATAACTCCTGCATCTCCAACAAGTTTGCCAATGATGGCAGCTTCCTGCAGCAGTTTCTGAAGTTACAGAAGGCACAGACAAGCACAGATTCAGCCCCCAGGGCCCCTCCCAGCATGCCAACACCCAGCTCCTTGAAGAAACCCCTTGTGCTCAGCAAGCGAACAGGCCTGGGACTGAGTAGCCCAACGGGTCCTGTGAAGAACTACTCACATGCCAAACAGCTGCCTGTTGCACACCGCCCGAGTGTCTTCCAGTCCCCTGATGATGATGAGGAGGAGGACTATGAGCAGTGGCTGGAAATCAAAGTTTCACCCCCAGAGGGAGCCGAGACTCGGAGAGTGATAGAGAAGCTGGCCCGTTTTGTGGCAGAAGGAGGCCCCGAGCTAGAGAAAGTAGCTATGGAGGACTACAAGGATAACCCGGCCTTCACATTTTTACATGATAAGAATAGCAGGGAATTCCTGTACTACAGAAGGAAGGTAGCCGAGATCAGGAAAGAAGCCCAAAAGCCACAGGCAGCCACCCAGAAAGTTTCACCCCCAGAGGATGAAGAGGCCAAGAACCTTGCAGAAAAGTTGGCCAGGTTCATAGCAGACGGGGGTCCAGAAGTGGAGACCATCGCCCTCCAGAACAACCGTGAGAATCAGGCCTTCAGTTTTCTCTATGATCCCAACAGCCAAGGGTACAGATACTACAGGCAAAAGCTAGATGAGTTCCGGAAAGCCAAGGCGGGCTCCACAGGCTCCTTCCCTGCTCCTGCTCCCAACCCCAGCCTGCGGCGAAAGTCTGCCCCAGAAGCCCTGTCAGGGGCTGTGCCCCCCATCACTGCCTGCCCCACTCCAGTGGCCCCAGCACCTGCTGTCAACCCCACTCCATCCATCCCTGGGAAGCCCACCGCCACAGCCGCTGTGAAGAGGAAGCGGAAGAGCCGGTGGGGGCCTGAAGAGGACAAAGTGGAGCTTCCACCTGCTGAACTGGCACAGAGGGACATAGATGCCTCACCTTCACCTCTTTCAGTTCAGGATCTCAAAGGGCTTGGCTATGAGAAGGGGAAACCTGTGGGCCTGGTGGGTGTCACAGAGCTGTCTGATGCACAAAAGAAGCAGCTGAAGGAGCAGCAGGAGATGCAGCAGATGTATGACATGATTATGCAGCACAAGCGCGCCATGCAAGACATGCAGCTTCTGTGGGAGAAGGCGCTGCAGCAACACCAGCATGGCTATGACAGTGATGAGGAGGTAGACAGTGAACTGGGCACCTGGGAGCACCAGCTGCGACGCATGGAGATGGACAAGACACGGGAGTGGGCAGAGCAGCTGACACAGATGGGTCGGGGCAAGCACTTCATCGGTGACTTTCTGCCCCCTGATGAGCTGGAGAAGTTCATGGAGACCTTCAAGGCCCTGAAGGAGGGCAGAGAGCCAGACTACTCAGAATATAAGGAGTTTAAGCTGACGGTGGAAAACATTGGCTACCAGATGCTCATGAAGATGGGCTGGAAAGAGGGCGAGGGGCTGGGCACTGAGGGCCAGGGCATCAAGAACCCAGTGAACAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGATGGGCTGGAAAGAGGG
59.37
TCCCGCTTCTTCTGAGCAAT
59.38
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGTGGAAAACATTGGCTACC
59.8
AGACTTGGGTTGTGCCATCC
60.25
141
PCR template sequence:
CGGTGGAAAACATTGGCTACCAGATGCTCATGAAGATGGGCTGGAAAGAGGGCGAGGGGCTGGGCACTGAGGGCCAGGGCATCAAGAACCCAGTGAACAAGAAAGGCCAATCGGTGGTTTGGGATGGCACAACCCAAGTCTGGAAAGATGAATATGAACATCCTCCACCAGGAAGAGCTTATTGCTCAGAAGAAGCGGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-328-3p(1), mmu-miR-138-5p(1), mmu-miR-149-5p(1), mmu-miR-431-5p(1), mmu-miR-22-3p(1), mmu-miR-218-5p(1), mmu-miR-224-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-188-3p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCCAGTGAACAAGAAAGGCCAATCG
siRNA sets
ATTGGCCTTTCTTGTTCAC, TTGGCCTTTCTTGTTCACT, GATTGGCCTTTCTTGTTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSUGP1_1741_ORF_1
1.0879
0.419579161
0.999990618
1824
ORF sequence:
ATGGCACAACCCAAGTCTGGAAAGATGAATATGAACATCCTCCACCAGGAAGAGCTTATTGCTCAGAAGAAGCGGGAGATTGAGGCCAGAATGGAACAAAAGGCCAGACAGAGTCATGTGCCCAGTCCACAGCCCCCTCATCCTGGAGAAATTGCTGATGCACATAACTCCTGCATCTCCAACAAGTTTGCCAATGATGGCAGCTTCCTGCAGCAGTTTCTGAAGTTACAGAAGGCACAGACAAGCACAGATTCAGCCCCCAGGGCCCCTCCCAGCATGCCAACACCCAGCTCCTTGAAGAAACCCCTTGTGCTCAGCAAGCGAACAGGCCTGGGACTGAGTAGCCCAACGGGTCCTGTGAAGAACTACTCACATGCCAAACAGCTGCCTGTTGCACACCGCCCGAGTGTCTTCCAGTCCCCTGATGATGATGAGGAGGAGGACTATGAGCAGTGGCTGGAAATCAAAGTTTCACCCCCAGAGGGAGCCGAGACTCGGAGAGTGATAGAGAAGCTGGCCCGTTTTGTGGCAGAAGGAGGCCCCGAGCTAGAGAAAGTAGCTATGGAGGACTACAAGGATAACCCGGCCTTCACATTTTTACATGATAAGAATAGCAGGGAATTCCTGTACTACAGAAGGAAGGTAGCCGAGATCAGGAAAGAAGCCCAAAAGCCACAGGCAGCCACCCAGAAAGTTTCACCCCCAGAGGATGAAGAGGCCAAGAACCTTGCAGAAAAGTTGGCCAGGTTCATAGCAGACGGGGGTCCAGAAGTGGAGACCATCGCCCTCCAGAACAACCGTGAGAATCAGGCCTTCAGTTTTCTCTATGATCCCAACAGCCAAGGGTACAGATACTACAGGCAAAAGCTAGATGAGTTCCGGAAAGCCAAGGCGGGCTCCACAGGCTCCTTCCCTGCTCCTGCTCCCAACCCCAGCCTGCGGCGAAAGTCTGCCCCAGAAGCCCTGTCAGGGGCTGTGCCCCCCATCACTGCCTGCCCCACTCCAGTGGCCCCAGCACCTGCTGTCAACCCCACTCCATCCATCCCTGGGAAGCCCACCGCCACAGCCGCTGTGAAGAGGAAGCGGAAGAGCCGGTGGGGGCCTGAAGAGGACAAAGTGGAGCTTCCACCTGCTGAACTGGCACAGAGGGACATAGATGCCTCACCTTCACCTCTTTCAGTTCAGGATCTCAAAGGGCTTGGCTATGAGAAGGGGAAACCTGTGGGCCTGGTGGGTGTCACAGAGCTGTCTGATGCACAAAAGAAGCAGCTGAAGGAGCAGCAGGAGATGCAGCAGATGTATGACATGATTATGCAGCACAAGCGCGCCATGCAAGACATGCAGCTTCTGTGGGAGAAGGCGCTGCAGCAACACCAGCATGGCTATGACAGTGATGAGGAGGTAGACAGTGAACTGGGCACCTGGGAGCACCAGCTGCGACGCATGGAGATGGACAAGACACGGGAGTGGGCAGAGCAGCTGACACAGATGGGTCGGGGCAAGCACTTCATCGGTGACTTTCTGCCCCCTGATGAGCTGGAGAAGTTCATGGAGACCTTCAAGGCCCTGAAGGAGGGCAGAGAGCCAGACTACTCAGAATATAAGGAGTTTAAGCTGACGGTGGAAAACATTGGCTACCAGATGCTCATGAAGATGGGCTGGAAAGAGGGCGAGGGGCTGGGCACTGAGGGCCAGGGCATCAAGAACCCAGTGAACAAGAAAGGCCAATCGGTGGTTTGGGATGGCACAACCCAAGTCTGGAAAGATGAATATGAACATCCTCCACCAGGAAGAGCTTATTGCTCAGAAGAAGCGGGAGATTGA
Peptide sequence:
MAQPKSGKMNMNILHQEELIAQKKREIEARMEQKARQSHVPSPQPPHPGEIADAHNSCISNKFANDGSFLQQFLKLQKAQTSTDSAPRAPPSMPTPSSLKKPLVLSKRTGLGLSSPTGPVKNYSHAKQLPVAHRPSVFQSPDDDEEEDYEQWLEIKVSPPEGAETRRVIEKLARFVAEGGPELEKVAMEDYKDNPAFTFLHDKNSREFLYYRRKVAEIRKEAQKPQAATQKVSPPEDEEAKNLAEKLARFIADGGPEVETIALQNNRENQAFSFLYDPNSQGYRYYRQKLDEFRKAKAGSTGSFPAPAPNPSLRRKSAPEALSGAVPPITACPTPVAPAPAVNPTPSIPGKPTATAAVKRKRKSRWGPEEDKVELPPAELAQRDIDASPSPLSVQDLKGLGYEKGKPVGLVGVTELSDAQKKQLKEQQEMQQMYDMIMQHKRAMQDMQLLWEKALQQHQHGYDSDEEVDSELGTWEHQLRRMEMDKTREWAEQLTQMGRGKHFIGDFLPPDELEKFMETFKALKEGREPDYSEYKEFKLTVENIGYQMLMKMGWKEGEGLGTEGQGIKNPVNKKGQSVVWDGTTQVWKDEYEHPPPGRAYCSEEAGD
IRESfinder result
IRESfinder score
0.337686947
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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