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mmu_circSmg6_621
Basic information of circular RNA
PanCircBase ID:
mmu_circSmg6_621
mm39_Chr. Position ID:
chr11|74823166|74837045|+
Gene name:
Smg6
Transcript:
ENSMUST00000045281.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
4,5,6,7,8
Exon/intron offsets:
0,2654,3018,13181,13666
Genomic length:
13879
Exon/intron sizes in nt:
1,11,10,77,91,11,213
Flanking exon/introns:
chr11:74822595-74823166|chr11:74837045-74872677
Splice length:
621
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGCAGTGACTTCTTTGATAGTTTGCTTCAGAAACTACAGGTTACTTACAAGTTCAAACTGGAGGACTACATGGATGGGCTTGCCATTCGAAGCAAGCCTTTACGAAAAACAGTGAAATATGCCTTGATCAGTGCTCAACGAAGTATGATTTGCCAAGGAGATATCTCTAGGTATCGGGAGCAAGCCAACGATACAGCAAACTATGGGAAGGCTCGCAGTTGGTATCTGAAGGCTCAGCACATTGCTCCCAAGAATGGGCGCCCCTATAACCAGTTGGCTCTACTGGCAGTGTATACGAGGAGGAAGCTTGATGCTGTATATTACTATATGCGCAGTTTAGCAGCCAGCAACCCTATCCTGACTGCCAAGGAGAGTCTCATGAGTTTATTTGAAGAGACTAAACGAAAGGCTGAACAGATGGAAAAGAAGCAGCATGAGGAATTTGATATGAGCCCTGATAAGTGGCGAAAAGGAAAGAAGTCTACTTTCCGGCATGTTGGGGATGACACTACTCGCCTGGAGATTTGGATTCATCCATCACATTCTCGGTCTGCCCAGGGCACTGAGTCTGGGAAGGATTCTGAGCAGGAGAATGGTCTGGGCAGCCTGAGTCCCAGTGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCACATTCTCGGTCTGCCC
59.82
GGCAAGCCCATCCATGTAGT
60.11
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCACATTCTCGGTCTGCCC
59.82
TGGCAAGCCCATCCATGTAG
60.11
170
PCR template sequence:
GATTTGGATTCATCCATCACATTCTCGGTCTGCCCAGGGCACTGAGTCTGGGAAGGATTCTGAGCAGGAGAATGGTCTGGGCAGCCTGAGTCCCAGTGATGGCAGTGACTTCTTTGATAGTTTGCTTCAGAAACTACAGGTTACTTACAAGTTCAAACTGGAGGACTACATGGATGGGCTTGCCATTCGAAGCAAGCCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-484(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGTCCCAGTGATGGCAGTGACTTCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSMG6_621_ORF_1
1.087
0.295692599
0.998378859
1173
ORF sequence:
ATGGATGGGCTTGCCATTCGAAGCAAGCCTTTACGAAAAACAGTGAAATATGCCTTGATCAGTGCTCAACGAAGTATGATTTGCCAAGGAGATATCTCTAGGTATCGGGAGCAAGCCAACGATACAGCAAACTATGGGAAGGCTCGCAGTTGGTATCTGAAGGCTCAGCACATTGCTCCCAAGAATGGGCGCCCCTATAACCAGTTGGCTCTACTGGCAGTGTATACGAGGAGGAAGCTTGATGCTGTATATTACTATATGCGCAGTTTAGCAGCCAGCAACCCTATCCTGACTGCCAAGGAGAGTCTCATGAGTTTATTTGAAGAGACTAAACGAAAGGCTGAACAGATGGAAAAGAAGCAGCATGAGGAATTTGATATGAGCCCTGATAAGTGGCGAAAAGGAAAGAAGTCTACTTTCCGGCATGTTGGGGATGACACTACTCGCCTGGAGATTTGGATTCATCCATCACATTCTCGGTCTGCCCAGGGCACTGAGTCTGGGAAGGATTCTGAGCAGGAGAATGGTCTGGGCAGCCTGAGTCCCAGTGATGGCAGTGACTTCTTTGATAGTTTGCTTCAGAAACTACAGGTTACTTACAAGTTCAAACTGGAGGACTACATGGATGGGCTTGCCATTCGAAGCAAGCCTTTACGAAAAACAGTGAAATATGCCTTGATCAGTGCTCAACGAAGTATGATTTGCCAAGGAGATATCTCTAGGTATCGGGAGCAAGCCAACGATACAGCAAACTATGGGAAGGCTCGCAGTTGGTATCTGAAGGCTCAGCACATTGCTCCCAAGAATGGGCGCCCCTATAACCAGTTGGCTCTACTGGCAGTGTATACGAGGAGGAAGCTTGATGCTGTATATTACTATATGCGCAGTTTAGCAGCCAGCAACCCTATCCTGACTGCCAAGGAGAGTCTCATGAGTTTATTTGAAGAGACTAAACGAAAGGCTGAACAGATGGAAAAGAAGCAGCATGAGGAATTTGATATGAGCCCTGATAAGTGGCGAAAAGGAAAGAAGTCTACTTTCCGGCATGTTGGGGATGACACTACTCGCCTGGAGATTTGGATTCATCCATCACATTCTCGGTCTGCCCAGGGCACTGAGTCTGGGAAGGATTCTGAGCAGGAGAATGGTCTGGGCAGCCTGAGTCCCAGTGAT
Peptide sequence:
MDGLAIRSKPLRKTVKYALISAQRSMICQGDISRYREQANDTANYGKARSWYLKAQHIAPKNGRPYNQLALLAVYTRRKLDAVYYYMRSLAASNPILTAKESLMSLFEETKRKAEQMEKKQHEEFDMSPDKWRKGKKSTFRHVGDDTTRLEIWIHPSHSRSAQGTESGKDSEQENGLGSLSPSDGSDFFDSLLQKLQVTYKFKLEDYMDGLAIRSKPLRKTVKYALISAQRSMICQGDISRYREQANDTANYGKARSWYLKAQHIAPKNGRPYNQLALLAVYTRRKLDAVYYYMRSLAASNPILTAKESLMSLFEETKRKAEQMEKKQHEEFDMSPDKWRKGKKSTFRHVGDDTTRLEIWIHPSHSRSAQGTESGKDSEQENGLGSLSPSD
IRESfinder result
IRESfinder score
0.572067913
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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