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mmu_circSirt1_395
Basic information of circular RNA
PanCircBase ID:
mmu_circSirt1_395
mm39_Chr. Position ID:
chr10|63167523|63171656|-
Gene name:
Sirt1
Transcript:
ENSMUST00000120239.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
9,8
Exon/intron offsets:
0,3891
Genomic length:
4133
Exon/intron sizes in nt:
1,53,242
Flanking exon/introns:
chr10:63161965-63167523|chr10:63171656-63172758
Splice length:
395
Other database IDs:
circAtlas: mmu-Sirt1_0001
circBase: hsa_circ_0093888, circAtlas: hsa-SIRT1_0001, CIRCpedia: HSA_CIRCpedia_1969
Human Ortholog IDs:
Mature spliced Sequence:
GTCCATATACTTTTGTTCAGCAACATCTCATGATTGGCACCGATCCTCGAACAATTCTTAAAGATTTATTACCAGAAACAATTCCTCCACCTGAGCTGGATGATATGACGCTGTGGCAGATTGTTATTAATATCCTTTCAGAACCACCAAAGCGGAAAAAAAGAAAAGATATCAATACAATTGAAGATGCTGTGAAGTTACTGCAGGAGTGTAAAAAGATAATAGTTCTGACTGGAGCTGGGGTTTCTGTCTCCTGTGGGATTCCTGACTTCAGATCAAGAGACGGTATCTATGCTCGCCTTGCGGTGGACTTCCCAGACCTCCCAGACCCTCAAGCCATGTTTGATATTGAGTATTTTAGAAAAGACCCAAGACCATTCTTCAAGTTTGCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGACCCTCAAGCCATGTT
59.96
CAGCTCAGGTGGAGGAATTGT
60
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGACCTCCCAGACCCTCAAG
60.25
CAGCTCAGGTGGAGGAATTGT
60
177
PCR template sequence:
TCGCCTTGCGGTGGACTTCCCAGACCTCCCAGACCCTCAAGCCATGTTTGATATTGAGTATTTTAGAAAAGACCCAAGACCATTCTTCAAGTTTGCAAAGGTCCATATACTTTTGTTCAGCAACATCTCATGATTGGCACCGATCCTCGAACAATTCTTAAAGATTTATTACCAGAAACAATTCCTCCACCTGAGCTGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
CAAGTTTGCAAAGGTCCATATACTTT
siRNA sets
ATATGGACCTTTGCAAACT, TATATGGACCTTTGCAAAC, AAAGTATATGGACCTTTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSIRT1_395_ORF_1
0.9226
0.130809331
0.467111638
399
ORF sequence:
ATGATTGGCACCGATCCTCGAACAATTCTTAAAGATTTATTACCAGAAACAATTCCTCCACCTGAGCTGGATGATATGACGCTGTGGCAGATTGTTATTAATATCCTTTCAGAACCACCAAAGCGGAAAAAAAGAAAAGATATCAATACAATTGAAGATGCTGTGAAGTTACTGCAGGAGTGTAAAAAGATAATAGTTCTGACTGGAGCTGGGGTTTCTGTCTCCTGTGGGATTCCTGACTTCAGATCAAGAGACGGTATCTATGCTCGCCTTGCGGTGGACTTCCCAGACCTCCCAGACCCTCAAGCCATGTTTGATATTGAGTATTTTAGAAAAGACCCAAGACCATTCTTCAAGTTTGCAAAGGTCCATATACTTTTGTTCAGCAACATCTCATGA
Peptide sequence:
MIGTDPRTILKDLLPETIPPPELDDMTLWQIVINILSEPPKRKKRKDINTIEDAVKLLQECKKIIVLTGAGVSVSCGIPDFRSRDGIYARLAVDFPDLPDPQAMFDIEYFRKDPRPFFKFAKVHILLFSNIS
IRESfinder result
IRESfinder score
0.785634345
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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