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mmu_circSbno1_741
Basic information of circular RNA
PanCircBase ID:
mmu_circSbno1_741
mm39_Chr. Position ID:
chr5|124538066|124540286|-
Gene name:
Sbno1
Transcript:
ENSMUST00000065263.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
14,13,12,11,10
Exon/intron offsets:
0,704,958,1137,2058
Genomic length:
2220
Exon/intron sizes in nt:
18,31,54,10,61,36,162
Flanking exon/introns:
chr5:124536572-124538066|chr5:124540286-124542022
Splice length:
741
Other database IDs:
circBase: mmu_circ_0012129, CIRCpedia: MMU_CIRCpedia_6321, circAtlas: mmu-Sbno1_0044
Human Ortholog IDs:
Mature spliced Sequence:
TTTAAATATGGTAAGATTTCTTCCAAACACAATGGGAGTGTGAAAAAAGGTGTTATTTTTGCTACCTATTCTTCCCTTATTGGTGAAAGCCAGTCTGGTGGTAAATATAAGACCAGGTTAAAACAGCTTCTACACTGGTGTGGTGACGACTTCGATGGAGTGATAGTGTTTGATGAATGTCACAAAGCAAAAAACTTATGTCCTGTTGGTTCTTCAAAGCCAACCAAGACAGGCTTGGCTGTTTTAGAGCTTCAGAACAAATTGCCAAAAGCCAGAGTTGTTTATGCCAGTGCCACTGGTGCTTCTGAACCACGCAACATGGCCTACATGAACCGTCTTGGAATATGGGGTGAGGGAACTCCATTCAGAGAATTTAGTGATTTTATCCAAGCTGTGGAACGCAGAGGTGTTGGTGCCATGGAAATCGTTGCTATGGATATGAAGCTTAGAGGAATGTACATTGCACGGCAGCTGAGCTTTACTGGAGTGACCTTCAAAATTGAGGAAGTTCTTCTTTCTCAAAGCTATGTGAAAATGTATAACAAAGCAGTCAAGCTGTGGGTTATCGCTAGAGAGCGATTTCAACAAGCTGCAGATTTGATTGATGCTGAGCAGAGAATGAAGAAATCGATGTGGGGTCAGTTCTGGTCTGCTCACCAGAGGTTTTTTAAGTACCTGTGTATAGCATCCAAAGTGAAAAGGGTGGTGCAGCTGGCTCGGGAAGAGATCAAGAACGGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAAAAGGGTGGTGCAGCTG
61.11
CACCAGACTGGCTTTCACCA
60.18
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGAAAAGGGTGGTGCAGCT
61.11
CACCAGACTGGCTTTCACCA
60.18
148
PCR template sequence:
GTTCTGGTCTGCTCACCAGAGGTTTTTTAAGTACCTGTGTATAGCATCCAAAGTGAAAAGGGTGGTGCAGCTGGCTCGGGAAGAGATCAAGAACGGGAAGTTTAAATATGGTAAGATTTCTTCCAAACACAATGGGAGTGTGAAAAAAGGTGTTATTTTTGCTACCTATTCTTCCCTTATTGGTGAAAGCCAGTCTGGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-199a-5p(1), mmu-miR-181a-5p(1), mmu-miR-29c-3p(1), mmu-miR-181b-5p(1), mmu-miR-127-5p(1), mmu-miR-96-5p(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAAGAACGGGAAGTTTAAATATGGTA
siRNA sets
TACCATATTTAAACTTCCC, TATTTAAACTTCCCGTTCT, TTTAAACTTCCCGTTCTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSBNO1_741_ORF_1
0.9043
0.12104143
0.995026332
1164
ORF sequence:
ATGGCCTACATGAACCGTCTTGGAATATGGGGTGAGGGAACTCCATTCAGAGAATTTAGTGATTTTATCCAAGCTGTGGAACGCAGAGGTGTTGGTGCCATGGAAATCGTTGCTATGGATATGAAGCTTAGAGGAATGTACATTGCACGGCAGCTGAGCTTTACTGGAGTGACCTTCAAAATTGAGGAAGTTCTTCTTTCTCAAAGCTATGTGAAAATGTATAACAAAGCAGTCAAGCTGTGGGTTATCGCTAGAGAGCGATTTCAACAAGCTGCAGATTTGATTGATGCTGAGCAGAGAATGAAGAAATCGATGTGGGGTCAGTTCTGGTCTGCTCACCAGAGGTTTTTTAAGTACCTGTGTATAGCATCCAAAGTGAAAAGGGTGGTGCAGCTGGCTCGGGAAGAGATCAAGAACGGGAAGTTTAAATATGGTAAGATTTCTTCCAAACACAATGGGAGTGTGAAAAAAGGTGTTATTTTTGCTACCTATTCTTCCCTTATTGGTGAAAGCCAGTCTGGTGGTAAATATAAGACCAGGTTAAAACAGCTTCTACACTGGTGTGGTGACGACTTCGATGGAGTGATAGTGTTTGATGAATGTCACAAAGCAAAAAACTTATGTCCTGTTGGTTCTTCAAAGCCAACCAAGACAGGCTTGGCTGTTTTAGAGCTTCAGAACAAATTGCCAAAAGCCAGAGTTGTTTATGCCAGTGCCACTGGTGCTTCTGAACCACGCAACATGGCCTACATGAACCGTCTTGGAATATGGGGTGAGGGAACTCCATTCAGAGAATTTAGTGATTTTATCCAAGCTGTGGAACGCAGAGGTGTTGGTGCCATGGAAATCGTTGCTATGGATATGAAGCTTAGAGGAATGTACATTGCACGGCAGCTGAGCTTTACTGGAGTGACCTTCAAAATTGAGGAAGTTCTTCTTTCTCAAAGCTATGTGAAAATGTATAACAAAGCAGTCAAGCTGTGGGTTATCGCTAGAGAGCGATTTCAACAAGCTGCAGATTTGATTGATGCTGAGCAGAGAATGAAGAAATCGATGTGGGGTCAGTTCTGGTCTGCTCACCAGAGGTTTTTTAAGTACCTGTGTATAGCATCCAAAGTGAAAAGGGTGGTGCAGCTGGCTCGGGAAGAGATCAAGAACGGGAAG
Peptide sequence:
MAYMNRLGIWGEGTPFREFSDFIQAVERRGVGAMEIVAMDMKLRGMYIARQLSFTGVTFKIEEVLLSQSYVKMYNKAVKLWVIARERFQQAADLIDAEQRMKKSMWGQFWSAHQRFFKYLCIASKVKRVVQLAREEIKNGKFKYGKISSKHNGSVKKGVIFATYSSLIGESQSGGKYKTRLKQLLHWCGDDFDGVIVFDECHKAKNLCPVGSSKPTKTGLAVLELQNKLPKARVVYASATGASEPRNMAYMNRLGIWGEGTPFREFSDFIQAVERRGVGAMEIVAMDMKLRGMYIARQLSFTGVTFKIEEVLLSQSYVKMYNKAVKLWVIARERFQQAADLIDAEQRMKKSMWGQFWSAHQRFFKYLCIASKVKRVVQLAREEIKNGK
IRESfinder result
IRESfinder score
0.536825751
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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