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mmu_circSptbn1_384
Basic information of circular RNA
PanCircBase ID:
mmu_circSptbn1_384
mm39_Chr. Position ID:
chr11|30063855|30064920|-
Gene name:
Sptbn1
Transcript:
ENSMUST00000006629.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
28,27
Exon/intron offsets:
0,820
Genomic length:
1065
Exon/intron sizes in nt:
1,39,245
Flanking exon/introns:
chr11:30062911-30063855|chr11:30064920-30067635
Splice length:
384
Other database IDs:
circAtlas: mmu-Sptbn1_0091
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGGCAGCTGCAGGAGGATGCAGCTCGCCTCCAGGCAGCCTATGCAGGGGACAAGGCTGATGACATCCAGAAGCGTGAGAATGAGGTCCTGGAAGCCTGGAAGTCCCTGCTGGATGCTTGTGAGGGTCGCAGGGTGCGGCTGGTAGACACAGGAGACAAGTTCCGCTTCTTCAGCATGGTGCGTGACCTCATGCTCTGGATGGAAGATGTCATCCGGCAGATCGAGGCCCAGGAGAAACCACGGGATGTGTCATCTGTTGAACTGTTAATGAATAATCATCAAGGTATCAAAGCTGAAATTGATGCTCGTAATGACAGCTTTACAGCCTGCATTGAGCTTGGGAAATCCCTGCTGGCACGGAAACACTATGCTTCTGAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCCTGCATTGAGCTTGG
61.25
CCAGGACCTCATTCTCACGC
60.46
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTGCATTGAGCTTGGGAA
61.25
CCAGGACCTCATTCTCACGC
60.46
151
PCR template sequence:
AGGTATCAAAGCTGAAATTGATGCTCGTAATGACAGCTTTACAGCCTGCATTGAGCTTGGGAAATCCCTGCTGGCACGGAAACACTATGCTTCTGAGGAGGTGAGGCAGCTGCAGGAGGATGCAGCTCGCCTCCAGGCAGCCTATGCAGGGGACAAGGCTGATGACATCCAGAAGCGTGAGAATGAGGTCCTGGAAGCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-320-3p(1), mmu-miR-214-3p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCTTCTGAGGAGGTGAGGCAGCTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPTBN1_384_ORF_1
1.1986
0.481937441
0.960953881
591
ORF sequence:
ATGGTGCGTGACCTCATGCTCTGGATGGAAGATGTCATCCGGCAGATCGAGGCCCAGGAGAAACCACGGGATGTGTCATCTGTTGAACTGTTAATGAATAATCATCAAGGTATCAAAGCTGAAATTGATGCTCGTAATGACAGCTTTACAGCCTGCATTGAGCTTGGGAAATCCCTGCTGGCACGGAAACACTATGCTTCTGAGGAGGTGAGGCAGCTGCAGGAGGATGCAGCTCGCCTCCAGGCAGCCTATGCAGGGGACAAGGCTGATGACATCCAGAAGCGTGAGAATGAGGTCCTGGAAGCCTGGAAGTCCCTGCTGGATGCTTGTGAGGGTCGCAGGGTGCGGCTGGTAGACACAGGAGACAAGTTCCGCTTCTTCAGCATGGTGCGTGACCTCATGCTCTGGATGGAAGATGTCATCCGGCAGATCGAGGCCCAGGAGAAACCACGGGATGTGTCATCTGTTGAACTGTTAATGAATAATCATCAAGGTATCAAAGCTGAAATTGATGCTCGTAATGACAGCTTTACAGCCTGCATTGAGCTTGGGAAATCCCTGCTGGCACGGAAACACTATGCTTCTGAGGAG
Peptide sequence:
MVRDLMLWMEDVIRQIEAQEKPRDVSSVELLMNNHQGIKAEIDARNDSFTACIELGKSLLARKHYASEEVRQLQEDAARLQAAYAGDKADDIQKRENEVLEAWKSLLDACEGRRVRLVDTGDKFRFFSMVRDLMLWMEDVIRQIEAQEKPRDVSSVELLMNNHQGIKAEIDARNDSFTACIELGKSLLARKHYASEE
IRESfinder result
IRESfinder score
0.265539227
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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