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mmu_circSmg6_1510
Basic information of circular RNA
PanCircBase ID:
mmu_circSmg6_1510
mm39_Chr. Position ID:
chr11|74822402|74944789|+
Gene name:
Smg6
Transcript:
ENSMUST00000045281.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
3,4,5,6,7,8,9,10,11,12,13
Exon/intron offsets:
0,764,3418,3782,13945,14430,50275,58493,107036,110291,122185
Genomic length:
122387
Exon/intron sizes in nt:
19,31,11,10,77,91,11,20,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:74821574-74822402|chr11:74944789-75030018
Splice length:
1510
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AACTGAACTACTGCAGCTGTACGAGCGCTGTATTCTATTAGATATTGAATTCTCCGACAGTCAGAATGTAGATCAGATCCTGTGGAAGAACGCTTTCTATCAGGTGATTGAGAAGTTCAGGCAGCTTCTCAAGGATCCAAACAGTGAGAACCCAGAGCAGATTCGGAACAGACTCTTGGAGCTCTTAGATGAGGGCAGTGACTTCTTTGATAGTTTGCTTCAGAAACTACAGGTTACTTACAAGTTCAAACTGGAGGACTACATGGATGGGCTTGCCATTCGAAGCAAGCCTTTACGAAAAACAGTGAAATATGCCTTGATCAGTGCTCAACGAAGTATGATTTGCCAAGGAGATATCTCTAGGTATCGGGAGCAAGCCAACGATACAGCAAACTATGGGAAGGCTCGCAGTTGGTATCTGAAGGCTCAGCACATTGCTCCCAAGAATGGGCGCCCCTATAACCAGTTGGCTCTACTGGCAGTGTATACGAGGAGGAAGCTTGATGCTGTATATTACTATATGCGCAGTTTAGCAGCCAGCAACCCTATCCTGACTGCCAAGGAGAGTCTCATGAGTTTATTTGAAGAGACTAAACGAAAGGCTGAACAGATGGAAAAGAAGCAGCATGAGGAATTTGATATGAGCCCTGATAAGTGGCGAAAAGGAAAGAAGTCTACTTTCCGGCATGTTGGGGATGACACTACTCGCCTGGAGATTTGGATTCATCCATCACATTCTCGGTCTGCCCAGGGCACTGAGTCTGGGAAGGATTCTGAGCAGGAGAATGGTCTGGGCAGCCTGAGTCCCAGTGATCTGAACAAAAGGTTCATCCTCAGTTTTCTCCATGCCCATGGGAAGCTGTTTACCCGGATTGGGATGGAGACATTCCCTGCAGTGGCTGAGAAGGTCCTTAAGGAGTTCCAAGTATTGCTGCAGCATAGCCCATCTCCTATTGGAAGTACCCGTATGCTGCAGCTTATGACCATCAACATGTTTGCCGTGCATAACTCCCAGTTGAAAGACTGCTTCTCAGAGGAGTGTCGTTCTGTGATCCAGGAACAAGCTGCATCCTTGGGCTTGGCTATGTTTTCTCTACTGGTCCAGCGCTGCACATGCCTACTTAAGGACTCTGCTAAAGCTCAGCTGTCCTCTCCTGAGGACCAAGAGGACCAAGATGACATCAAGGTATCTTCCTTCGTCCCGGACCTGAAGGAGCTGCTCCCCAGTGTGAAAGTCTGGTCTGATTGGATGCTTGGCTACCCAGACACCTGGAATCCTCCACCCACATCTTTGGATCTGCCCTTGCAGGTTGCTGTGGATGTCTGGTCAACACTAGCTGATTTCTGTAACATACTGACTGCAGTCAATCAGTCTGAGGTGCCACTGTACAAGGACCCAGATGATGACCTCACCCTGCTTATCCTGGAAGAGGATCGGCTTCTCTCTGGCTTTGTCCCCTTGCTGGCTGCCCCTCAGGACCCCTGCTACGTGGAGAAAACCTCGGATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGGCTTCTCTCTGGCTTTG
60.04
AGCGTTCTTCCACAGGATCTG
60.07
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGGCTTCTCTCTGGCTTTG
60.04
GCGTTCTTCCACAGGATCTGA
60.07
169
PCR template sequence:
CACCCTGCTTATCCTGGAAGAGGATCGGCTTCTCTCTGGCTTTGTCCCCTTGCTGGCTGCCCCTCAGGACCCCTGCTACGTGGAGAAAACCTCGGATAAGAACTGAACTACTGCAGCTGTACGAGCGCTGTATTCTATTAGATATTGAATTCTCCGACAGTCAGAATGTAGATCAGATCCTGTGGAAGAACGCTTTCTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-30e-5p(1), mmu-miR-30a-5p(1), mmu-miR-326-3p(1), mmu-miR-362-5p(1), mmu-miR-484(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACCTCGGATAAGAACTGAACTACTG
siRNA sets
GTAGTTCAGTTCTTATCCG, AGTAGTTCAGTTCTTATCC, GTTCAGTTCTTATCCGAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSMG6_1510_ORF_1
1.04
0.285637554
0.999923538
1620
ORF sequence:
ATGATGACCTCACCCTGCTTATCCTGGAAGAGGATCGGCTTCTCTCTGGCTTTGTCCCCTTGCTGGCTGCCCCTCAGGACCCCTGCTACGTGGAGAAAACCTCGGATAAGAACTGAACTACTGCAGCTGTACGAGCGCTGTATTCTATTAGATATTGAATTCTCCGACAGTCAGAATGTAGATCAGATCCTGTGGAAGAACGCTTTCTATCAGGTGATTGAGAAGTTCAGGCAGCTTCTCAAGGATCCAAACAGTGAGAACCCAGAGCAGATTCGGAACAGACTCTTGGAGCTCTTAGATGAGGGCAGTGACTTCTTTGATAGTTTGCTTCAGAAACTACAGGTTACTTACAAGTTCAAACTGGAGGACTACATGGATGGGCTTGCCATTCGAAGCAAGCCTTTACGAAAAACAGTGAAATATGCCTTGATCAGTGCTCAACGAAGTATGATTTGCCAAGGAGATATCTCTAGGTATCGGGAGCAAGCCAACGATACAGCAAACTATGGGAAGGCTCGCAGTTGGTATCTGAAGGCTCAGCACATTGCTCCCAAGAATGGGCGCCCCTATAACCAGTTGGCTCTACTGGCAGTGTATACGAGGAGGAAGCTTGATGCTGTATATTACTATATGCGCAGTTTAGCAGCCAGCAACCCTATCCTGACTGCCAAGGAGAGTCTCATGAGTTTATTTGAAGAGACTAAACGAAAGGCTGAACAGATGGAAAAGAAGCAGCATGAGGAATTTGATATGAGCCCTGATAAGTGGCGAAAAGGAAAGAAGTCTACTTTCCGGCATGTTGGGGATGACACTACTCGCCTGGAGATTTGGATTCATCCATCACATTCTCGGTCTGCCCAGGGCACTGAGTCTGGGAAGGATTCTGAGCAGGAGAATGGTCTGGGCAGCCTGAGTCCCAGTGATCTGAACAAAAGGTTCATCCTCAGTTTTCTCCATGCCCATGGGAAGCTGTTTACCCGGATTGGGATGGAGACATTCCCTGCAGTGGCTGAGAAGGTCCTTAAGGAGTTCCAAGTATTGCTGCAGCATAGCCCATCTCCTATTGGAAGTACCCGTATGCTGCAGCTTATGACCATCAACATGTTTGCCGTGCATAACTCCCAGTTGAAAGACTGCTTCTCAGAGGAGTGTCGTTCTGTGATCCAGGAACAAGCTGCATCCTTGGGCTTGGCTATGTTTTCTCTACTGGTCCAGCGCTGCACATGCCTACTTAAGGACTCTGCTAAAGCTCAGCTGTCCTCTCCTGAGGACCAAGAGGACCAAGATGACATCAAGGTATCTTCCTTCGTCCCGGACCTGAAGGAGCTGCTCCCCAGTGTGAAAGTCTGGTCTGATTGGATGCTTGGCTACCCAGACACCTGGAATCCTCCACCCACATCTTTGGATCTGCCCTTGCAGGTTGCTGTGGATGTCTGGTCAACACTAGCTGATTTCTGTAACATACTGACTGCAGTCAATCAGTCTGAGGTGCCACTGTACAAGGACCCAGATGATGACCTCACCCTGCTTATCCTGGAAGAGGATCGGCTTCTCTCTGGCTTTGTCCCCTTGCTGGCTGCCCCTCAGGACCCCTGCTACGTGGAGAAAACCTCGGATAAG
Peptide sequence:
MMTSPCLSWKRIGFSLALSPCWLPLRTPATWRKPRIRTELLQLYERCILLDIEFSDSQNVDQILWKNAFYQVIEKFRQLLKDPNSENPEQIRNRLLELLDEGSDFFDSLLQKLQVTYKFKLEDYMDGLAIRSKPLRKTVKYALISAQRSMICQGDISRYREQANDTANYGKARSWYLKAQHIAPKNGRPYNQLALLAVYTRRKLDAVYYYMRSLAASNPILTAKESLMSLFEETKRKAEQMEKKQHEEFDMSPDKWRKGKKSTFRHVGDDTTRLEIWIHPSHSRSAQGTESGKDSEQENGLGSLSPSDLNKRFILSFLHAHGKLFTRIGMETFPAVAEKVLKEFQVLLQHSPSPIGSTRMLQLMTINMFAVHNSQLKDCFSEECRSVIQEQAASLGLAMFSLLVQRCTCLLKDSAKAQLSSPEDQEDQDDIKVSSFVPDLKELLPSVKVWSDWMLGYPDTWNPPPTSLDLPLQVAVDVWSTLADFCNILTAVNQSEVPLYKDPDDDLTLLILEEDRLLSGFVPLLAAPQDPCYVEKTSDK
IRESfinder result
IRESfinder score
0.542349006
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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